Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 101 of 427
Found at i:26787496 original size:7 final size:7
Alignment explanation
Indices: 26787428--26787499 Score: 63
Period size: 7 Copynumber: 9.9 Consensus size: 7
26787418 GGTTTGAGAT
26787428 TTAGGGG
1 TTAGGGG
*
26787435 TTAAGGG
1 TTAGGGG
*
26787442 TTAGAGG
1 TTAGGGG
26787449 TTAGGGG
1 TTAGGGG
**
26787456 TTAAAGG
1 TTAGGGG
*
26787463 TTATGGGAT
1 TTA-GGG-G
26787472 TTAGGGG
1 TTAGGGG
*
26787479 TTTATGGG
1 -TTAGGGG
26787487 TTAGGGG
1 TTAGGGG
26787494 TTAGGG
1 TTAGGG
26787500 ATTAATGGGA
Statistics
Matches: 50, Mismatches: 12, Indels: 6
0.74 0.18 0.09
Matches are distributed among these distances:
7 37 0.74
8 10 0.20
9 3 0.06
ACGTcount: A:0.21, C:0.00, G:0.46, T:0.33
Consensus pattern (7 bp):
TTAGGGG
Found at i:26787524 original size:22 final size:22
Alignment explanation
Indices: 26787472--26787517 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
26787462 GTTATGGGAT
* * *
26787472 TTAGGGGTTTATGGGTTAGGGG
1 TTAGGGATTAATGGGATAGGGG
26787494 TTAGGGATTAATGGGATAGGGG
1 TTAGGGATTAATGGGATAGGGG
26787516 TT
1 TT
26787518 TATGATTTAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.20, C:0.00, G:0.46, T:0.35
Consensus pattern (22 bp):
TTAGGGATTAATGGGATAGGGG
Found at i:26788253 original size:15 final size:15
Alignment explanation
Indices: 26788233--26788292 Score: 61
Period size: 15 Copynumber: 4.1 Consensus size: 15
26788223 GGCCATTACA
26788233 GATTATGGGTTTAGG
1 GATTATGGGTTTAGG
*
26788248 GATTATAGGTTTAGG
1 GATTATGGGTTTAGG
* *
26788263 GTTTAAGGG-TTATGG
1 GATTATGGGTTTA-GG
*
26788278 G-TTAGGGGTTTAGG
1 GATTATGGGTTTAGG
26788292 G
1 G
26788293 TTAAGGGGAT
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
14 12 0.32
15 26 0.68
ACGTcount: A:0.20, C:0.00, G:0.42, T:0.38
Consensus pattern (15 bp):
GATTATGGGTTTAGG
Found at i:26788288 original size:29 final size:28
Alignment explanation
Indices: 26788255--26788335 Score: 90
Period size: 29 Copynumber: 2.8 Consensus size: 28
26788245 AGGGATTATA
*
26788255 GGTTTAGGGTTTAAGGGTTATGGGTTAGG
1 GGTTTAGGG-TTAAGGGTTATGGGTGAGG
* *
26788284 GGTTTAGGGTTAAGGGGATAAGGGTGAGG
1 GGTTTAGGGTTAA-GGGTTATGGGTGAGG
* *
26788313 GGTTAAGGGATAAGGGTTTATGG
1 GGTTTAGGGTTAAGGG-TTATGG
26788336 TTTATGAGTT
Statistics
Matches: 43, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
28 7 0.16
29 36 0.84
ACGTcount: A:0.22, C:0.00, G:0.47, T:0.31
Consensus pattern (28 bp):
GGTTTAGGGTTAAGGGTTATGGGTGAGG
Found at i:26788376 original size:15 final size:14
Alignment explanation
Indices: 26788356--26788392 Score: 56
Period size: 15 Copynumber: 2.6 Consensus size: 14
26788346 AATATTTTAA
26788356 GGTTTATGAATTAT
1 GGTTTATGAATTAT
*
26788370 GGGTTTATGGATTAT
1 -GGTTTATGAATTAT
26788385 GGTTTATG
1 GGTTTATG
26788393 GTTTAAGGGT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 8 0.38
15 13 0.62
ACGTcount: A:0.22, C:0.00, G:0.30, T:0.49
Consensus pattern (14 bp):
GGTTTATGAATTAT
Found at i:26788379 original size:8 final size:7
Alignment explanation
Indices: 26788327--26788397 Score: 61
Period size: 7 Copynumber: 9.9 Consensus size: 7
26788317 AAGGGATAAG
26788327 GGTTTAT
1 GGTTTAT
26788334 GGTTTAT
1 GGTTTAT
*
26788341 GAGTTAAT
1 G-GTTTAT
** *
26788349 ATTTTAA
1 GGTTTAT
26788356 GGTTTAT
1 GGTTTAT
**
26788363 GAATTAT
1 GGTTTAT
26788370 GGGTTTAT
1 -GGTTTAT
*
26788378 GGATTAT
1 GGTTTAT
26788385 GGTTTAT
1 GGTTTAT
26788392 GGTTTA
1 GGTTTA
26788398 AGGGTTGGGG
Statistics
Matches: 48, Mismatches: 14, Indels: 4
0.73 0.21 0.06
Matches are distributed among these distances:
7 38 0.79
8 10 0.21
ACGTcount: A:0.24, C:0.00, G:0.25, T:0.51
Consensus pattern (7 bp):
GGTTTAT
Found at i:26788437 original size:14 final size:14
Alignment explanation
Indices: 26788265--26788438 Score: 55
Period size: 14 Copynumber: 12.1 Consensus size: 14
26788255 GGTTTAGGGT
26788265 TTAAGGGTTATGGG
1 TTAAGGGTTATGGG
*
26788279 TTAGGGGTT-TAGGG
1 TTAAGGGTTAT-GGG
* *
26788293 TTAAGGGGATAAGGG
1 TTAA-GGGTTATGGG
* * *
26788308 TGAGGGGTTAAGGG
1 TTAAGGGTTATGGG
* *
26788322 ATAAGGGTTTATGGT
1 TTAAGGG-TTATGGG
* * ***
26788337 TTATGAGTTAATATT
1 TTAAGGGTT-ATGGG
* **
26788352 TTAAGGTTTATGAA
1 TTAAGGGTTATGGG
* *
26788366 TTATGGGTTTATGGA
1 TTAAGGG-TTATGGG
* * *
26788381 TTATGGTTTATGGT
1 TTAAGGGTTATGGG
*
26788395 TTAAGGGTT-GGGG
1 TTAAGGGTTATGGG
* * *
26788408 TTTAAAGTTTAAGGG
1 -TTAAGGGTTATGGG
26788423 TTAAGGGTTATGGG
1 TTAAGGGTTATGGG
26788437 TT
1 TT
26788439 TATAGGTTAA
Statistics
Matches: 114, Mismatches: 38, Indels: 16
0.68 0.23 0.10
Matches are distributed among these distances:
13 3 0.03
14 69 0.61
15 42 0.37
ACGTcount: A:0.24, C:0.00, G:0.37, T:0.39
Consensus pattern (14 bp):
TTAAGGGTTATGGG
Found at i:26788439 original size:22 final size:22
Alignment explanation
Indices: 26788235--26788476 Score: 81
Period size: 22 Copynumber: 11.1 Consensus size: 22
26788225 CCATTACAGA
*
26788235 TTATGGGTTT-AGGGATTATAGGT
1 TTATGGGTTTAAGGG-TTA-AGGG
*
26788258 TTA-GGGTTTAAGGGTTATGGG
1 TTATGGGTTTAAGGGTTAAGGG
*
26788279 TTAGGGGTTT-AGGGTTAAGGGG
1 TTATGGGTTTAAGGGTTAA-GGG
* * * *
26788301 ATAAGGG-TGAGGGGTTAAGGG
1 TTATGGGTTTAAGGGTTAAGGG
* * * * * *
26788322 ATAAGGGTTTATGGTTTATGAG
1 TTATGGGTTTAAGGGTTAAGGG
** * * **
26788344 TTAAT-ATTTTAAGGTTTATGAA
1 TT-ATGGGTTTAAGGGTTAAGGG
* * * *
26788366 TTATGGGTTTATGGATTATGGT
1 TTATGGGTTTAAGGGTTAAGGG
*
26788388 TTAT-GGTTTAAGGGTT-GGGG
1 TTATGGGTTTAAGGGTTAAGGG
**
26788408 TT-TAAAGTTTAAGGGTTAAGGG
1 TTAT-GGGTTTAAGGGTTAAGGG
*
26788430 TTATGGGTTTATA-GGTTAAAAGG
1 TTATGGGTTTA-AGGGTT-AAGGG
**
26788453 ACATGGG-TTAAGGGTTTAAGGG
1 TTATGGGTTTAAGGG-TTAAGGG
26788475 TT
1 TT
26788477 TAAGGGCTAA
Statistics
Matches: 166, Mismatches: 38, Indels: 31
0.71 0.16 0.13
Matches are distributed among these distances:
19 1 0.01
20 4 0.02
21 47 0.28
22 93 0.56
23 21 0.13
ACGTcount: A:0.25, C:0.00, G:0.36, T:0.38
Consensus pattern (22 bp):
TTATGGGTTTAAGGGTTAAGGG
Found at i:26788473 original size:8 final size:8
Alignment explanation
Indices: 26788460--26788497 Score: 51
Period size: 8 Copynumber: 4.9 Consensus size: 8
26788450 AGGACATGGG
26788460 TTAAGGGT
1 TTAAGGGT
26788468 TTAAGGGT
1 TTAAGGGT
26788476 TTAAGGG-
1 TTAAGGGT
* *
26788483 CTAAGGGG
1 TTAAGGGT
26788491 TTAAGGG
1 TTAAGGG
26788498 GACAGAGGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
7 6 0.22
8 21 0.78
ACGTcount: A:0.26, C:0.03, G:0.42, T:0.29
Consensus pattern (8 bp):
TTAAGGGT
Found at i:26788475 original size:15 final size:15
Alignment explanation
Indices: 26788392--26788497 Score: 60
Period size: 15 Copynumber: 7.1 Consensus size: 15
26788382 TATGGTTTAT
*
26788392 GGTTTAAGGGTT-GG
1 GGTTTAAGGGTTAAG
* *
26788406 GGTTTAAAGTTTAAG
1 GGTTTAAGGGTTAAG
*
26788421 GG-TTAAGGGTTATG
1 GGTTTAAGGGTTAAG
*
26788435 GGTTTATA-GGTTAAAA
1 GGTTTA-AGGGTT-AAG
** *
26788451 GG-ACATGGGTTAAG
1 GGTTTAAGGGTTAAG
26788465 GGTTTAAGGGTTTAAG
1 GGTTTAAGGG-TTAAG
*
26788481 GG-CTAAGGGGTTAAG
1 GGTTTAA-GGGTTAAG
26788496 GG
1 GG
26788498 GACAGAGGTT
Statistics
Matches: 68, Mismatches: 16, Indels: 15
0.69 0.16 0.15
Matches are distributed among these distances:
14 25 0.37
15 29 0.43
16 14 0.21
ACGTcount: A:0.26, C:0.02, G:0.40, T:0.32
Consensus pattern (15 bp):
GGTTTAAGGGTTAAG
Found at i:26788654 original size:16 final size:16
Alignment explanation
Indices: 26788635--26788688 Score: 57
Period size: 16 Copynumber: 3.8 Consensus size: 16
26788625 ATATTAAATA
26788635 ATTTCAAATTTTCAAG
1 ATTTCAAATTTTCAAG
*
26788651 ATTTAAAATTTTC-A-
1 ATTTCAAATTTTCAAG
26788665 A--T--AATTTTCAAG
1 ATTTCAAATTTTCAAG
26788677 ATTTCAAATTTT
1 ATTTCAAATTTT
26788689 ATCTAATTCT
Statistics
Matches: 31, Mismatches: 1, Indels: 12
0.70 0.02 0.27
Matches are distributed among these distances:
10 7 0.23
11 1 0.03
12 2 0.06
14 2 0.06
15 1 0.03
16 18 0.58
ACGTcount: A:0.39, C:0.09, G:0.04, T:0.48
Consensus pattern (16 bp):
ATTTCAAATTTTCAAG
Found at i:26790392 original size:27 final size:27
Alignment explanation
Indices: 26790354--26790421 Score: 136
Period size: 27 Copynumber: 2.5 Consensus size: 27
26790344 TTGTGTTTGA
26790354 TTCTATTTATTGTGGTTGAAATAGTTG
1 TTCTATTTATTGTGGTTGAAATAGTTG
26790381 TTCTATTTATTGTGGTTGAAATAGTTG
1 TTCTATTTATTGTGGTTGAAATAGTTG
26790408 TTCTATTTATTGTG
1 TTCTATTTATTGTG
26790422 AGGTATCACT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 41 1.00
ACGTcount: A:0.21, C:0.04, G:0.21, T:0.54
Consensus pattern (27 bp):
TTCTATTTATTGTGGTTGAAATAGTTG
Found at i:26791349 original size:24 final size:24
Alignment explanation
Indices: 26791319--26791371 Score: 97
Period size: 24 Copynumber: 2.2 Consensus size: 24
26791309 CTATGTTATG
26791319 ATATTTGTAACTAAAATTAATATT
1 ATATTTGTAACTAAAATTAATATT
*
26791343 ATATTTGTATCTAAAATTAATATT
1 ATATTTGTAACTAAAATTAATATT
26791367 ATATT
1 ATATT
26791372 ATAAAACACT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.43, C:0.04, G:0.04, T:0.49
Consensus pattern (24 bp):
ATATTTGTAACTAAAATTAATATT
Found at i:26794745 original size:13 final size:14
Alignment explanation
Indices: 26794729--26794757 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
26794719 TTTTAAATAT
26794729 TTATAAT-GTTTAA
1 TTATAATGGTTTAA
26794742 TTATAATGGTTTAA
1 TTATAATGGTTTAA
26794756 TT
1 TT
26794758 CGTCATTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.55
Consensus pattern (14 bp):
TTATAATGGTTTAA
Found at i:26795160 original size:21 final size:21
Alignment explanation
Indices: 26795134--26795178 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
26795124 ACTTAGAGCG
*
26795134 GAGGCAATAGCGAGGGAAGCA
1 GAGGCAATAACGAGGGAAGCA
*
26795155 GAGGCAGTAACGAGGGAAGCA
1 GAGGCAATAACGAGGGAAGCA
26795176 GAG
1 GAG
26795179 CAGAGCAGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.38, C:0.13, G:0.44, T:0.04
Consensus pattern (21 bp):
GAGGCAATAACGAGGGAAGCA
Found at i:26795512 original size:43 final size:42
Alignment explanation
Indices: 26795464--26795564 Score: 150
Period size: 42 Copynumber: 2.4 Consensus size: 42
26795454 CGTTAAAGGA
* *
26795464 CATGTTCTTTAGCGGCGTTTGTGGTAAAAGTGCCA-CTAAAAGT
1 CATGTTCTTTAGCGGCGTTTGTGAT-AAAGCG-CAGCTAAAAGT
26795507 CATGTTCTTTAGCGGCGTTTGTGATAAAGCGCAGCTAAAAGT
1 CATGTTCTTTAGCGGCGTTTGTGATAAAGCGCAGCTAAAAGT
*
26795549 CATATTCTTTAGCGGC
1 CATGTTCTTTAGCGGC
26795565 TGTAGTGGGC
Statistics
Matches: 54, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
41 2 0.04
42 28 0.52
43 24 0.44
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.33
Consensus pattern (42 bp):
CATGTTCTTTAGCGGCGTTTGTGATAAAGCGCAGCTAAAAGT
Found at i:26796985 original size:20 final size:20
Alignment explanation
Indices: 26796952--26797002 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
26796942 AAATGTTTTT
26796952 TATACATTATTATATATATATA
1 TATACA-TA-TATATATATATA
*
26796974 TATACATATATATATCTATA
1 TATACATATATATATATATA
*
26796994 TGTACATAT
1 TATACATAT
26797003 GTTCTTTGTA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
20 19 0.70
21 2 0.07
22 6 0.22
ACGTcount: A:0.43, C:0.08, G:0.02, T:0.47
Consensus pattern (20 bp):
TATACATATATATATATATA
Found at i:26798878 original size:135 final size:132
Alignment explanation
Indices: 26798526--26799024 Score: 407
Period size: 131 Copynumber: 3.8 Consensus size: 132
26798516 AGATTTGATA
* * * * * * *
26798526 TTTGGCAATTCGCGGAATCGTGCCTTAACGTGTTGGGTTGCAATTTCTCGTTTGCTCAAAATAAT
1 TTTGGCAATTCG-GGAATCATGCCCTATCGTGCTGGGTTGCGATTTCTCGTTTGTTCAAAACAAT
* ** * * * * * * * * **
26798591 CAAATATCCCTTCAAAATTCCACTCAG-GTCTTCCAAAAAC-CCTCTAAAACGAAGGCAATACTC
65 CGAATATCCCTTCGGAATTTCACTCTGTTTTTTCTAAAAACTCTTC-AAAACGAAAGAAATGTTC
**
26798654 GGTG
129 AATG
* * *
26798658 TTTGACAATTCGGGAATCATGCCCTATCGTGCTGGGTTGTGATTTCTCGTTTGGTCAAAACAATC
1 TTTGGCAATTCGGGAATCATGCCCTATCGTGCTGGGTTGCGATTTCTCGTTTGTTCAAAACAATC
* * * * * **
26798723 GAATATTCCTTTAGG-TTTTCACTCTTGTTTTTTTTAAGAAAACAT-TTCAAAACGAAGGTGATG
66 GAATA-TCCCTTCGGAATTTCACTC-TGTTTTTTCT-A-AAAAC-TCTTCAAAACGAAAGAAATG
26798786 TTCAATG
126 TTCAATG
* * * * * * *
26798793 TTTGGCAATTTGAGAATCGTGCCCTATCGTGCTGGGTTGCGCTTTTTCATTTGTTCGAAACAATC
1 TTTGGCAATTCGGGAATCATGCCCTATCGTGCTGGGTTGCGATTTCTCGTTTGTTCAAAACAATC
* ** * *
26798858 GAAGATCCCTTCGGAATTTCACTC-ACTTTTTCTAAAAACTCTTTAAAACGAAAGAAATGTTCGA
66 GAATATCCCTTCGGAATTTCACTCTGTTTTTTCTAAAAACTCTTCAAAACGAAAGAAATGTTCAA
26798922 TG
131 TG
* * * * * *
26798924 TTTGGCAATTCGGGGAATAATGCCCTATCGTGTTGGGTTGCAATCTCCCGTTTGTTCAAAATAAT
1 TTTGGCAATTC-GGGAATCATGCCCTATCGTGCTGGGTTGCGATTTCTCGTTTGTTCAAAACAAT
* * *
26798989 TGAATATCTCTTCGGAATTTCACTC-GTGTTTTCTAA
65 CGAATATCCCTTCGGAATTTCACTCTGTTTTTTCTAA
26799025 GGTGAAGCAA
Statistics
Matches: 288, Mismatches: 69, Indels: 20
0.76 0.18 0.05
Matches are distributed among these distances:
130 1 0.00
131 91 0.32
132 89 0.31
133 9 0.03
134 8 0.03
135 88 0.31
136 2 0.01
ACGTcount: A:0.26, C:0.20, G:0.19, T:0.35
Consensus pattern (132 bp):
TTTGGCAATTCGGGAATCATGCCCTATCGTGCTGGGTTGCGATTTCTCGTTTGTTCAAAACAATC
GAATATCCCTTCGGAATTTCACTCTGTTTTTTCTAAAAACTCTTCAAAACGAAAGAAATGTTCAA
TG
Found at i:26799002 original size:132 final size:131
Alignment explanation
Indices: 26798397--26799024 Score: 471
Period size: 132 Copynumber: 4.7 Consensus size: 131
26798387 TTCGATTCTC
* *
26798397 GGCAATTCGTGGAATTGTGCCCTAAT-GTGTTGGGTTGCAATTTCTCGTTTGCT-AAAAGTAATC
1 GGCAATTCGGGGAATCGTGCCCT-ATCGTGTTGGGTTGCAATTTCTCGTTTGCTCAAAA-TAATC
** ** * * * * * *
26798460 GAAGGTCCCTTTAGAATTTCACCCATGTCTCTTAAAAATTCTTTAAAGCGAAGACGAGAT-TT-G
64 GAATATCCCTTCGGAATTTCACTCATTTTTC-TAAAAACTCTTTAAAACGAA-A-GAAATGTTCG
*
26798523 ATATTT
126 ATGTTT
* * * *
26798529 GGCAATTCGCGGAATCGTGCCTTAACGTGTTGGGTTGCAATTTCTCGTTTGCTCAAAATAATCAA
1 GGCAATTCGGGGAATCGTGCCCTATCGTGTTGGGTTGCAATTTCTCGTTTGCTCAAAATAATCGA
** * * * * * * * * ** *
26798594 ATATCCCTTCAAAATTCCACTCAGGTCTTCCAAAAACCCTCTAAAACGAAGGCAATACTCGGTGT
66 ATATCCCTTCGGAATTTCACTCA-TTTTTCTAAAAACTCTTTAAAACGAAAGAAATGTTCGATGT
26798659 TT
130 TT
* * * ** * *
26798661 GACAATTC-GGGAATCATGCCCTATCGTGCTGGGTTGTGATTTCTCGTTTGGTCAAAACAATCGA
1 GGCAATTCGGGGAATCGTGCCCTATCGTGTTGGGTTGCAATTTCTCGTTTGCTCAAAATAATCGA
* * * * * * * **
26798725 ATATTCCTTTAGG-TTTTCACTCTTGTTTTTTTTAAGAAAACAT-TTCAAAACGAAGGTGATGTT
66 ATA-TCCCTTCGGAATTTCACTC---ATTTTTCT-A-AAAAC-TCTTTAAAACGAAAGAAATGTT
*
26798788 CAATGTTT
124 CGATGTTT
* * * ** * * * * *
26798796 GGCAATT-TGAGAATCGTGCCCTATCGTGCTGGGTTGCGCTTTTTCATTTGTTCGAAACAATCGA
1 GGCAATTCGGGGAATCGTGCCCTATCGTGTTGGGTTGCAATTTCTCGTTTGCTCAAAATAATCGA
*
26798860 AGATCCCTTCGGAATTTCACTCACTTTTTCTAAAAACTCTTTAAAACGAAAGAAATGTTCGATGT
66 ATATCCCTTCGGAATTTCACTCA-TTTTTCTAAAAACTCTTTAAAACGAAAGAAATGTTCGATGT
26798925 TT
130 TT
** * * * *
26798927 GGCAATTCGGGGAATAATGCCCTATCGTGTTGGGTTGCAATCTCCCGTTTGTTCAAAATAATTGA
1 GGCAATTCGGGGAATCGTGCCCTATCGTGTTGGGTTGCAATTTCTCGTTTGCTCAAAATAATCGA
* *
26798992 ATATCTCTTCGGAATTTCACTCGTGTTTTCTAA
66 ATATCCCTTCGGAATTTCACTCAT-TTTTCTAA
26799025 GGTGAAGCAA
Statistics
Matches: 384, Mismatches: 94, Indels: 36
0.75 0.18 0.07
Matches are distributed among these distances:
130 4 0.01
131 94 0.24
132 174 0.45
133 15 0.04
134 8 0.02
135 89 0.23
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.35
Consensus pattern (131 bp):
GGCAATTCGGGGAATCGTGCCCTATCGTGTTGGGTTGCAATTTCTCGTTTGCTCAAAATAATCGA
ATATCCCTTCGGAATTTCACTCATTTTTCTAAAAACTCTTTAAAACGAAAGAAATGTTCGATGTT
T
Found at i:26799587 original size:43 final size:43
Alignment explanation
Indices: 26799534--26799623 Score: 153
Period size: 43 Copynumber: 2.1 Consensus size: 43
26799524 ACAGCGGCAT
*
26799534 TTTTGCCACAAACGCCGATAAAAAACATGACCTTTAGCGGCGC
1 TTTTGCCACAAACGCCGATAAAAAACATGACCTTTAGCAGCGC
* *
26799577 TTTTGCCACAAACGCCGCTAAAGAACATGACCTTTAGCAGCGC
1 TTTTGCCACAAACGCCGATAAAAAACATGACCTTTAGCAGCGC
26799620 TTTT
1 TTTT
26799624 TACAAATAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.24
Consensus pattern (43 bp):
TTTTGCCACAAACGCCGATAAAAAACATGACCTTTAGCAGCGC
Found at i:26799732 original size:13 final size:13
Alignment explanation
Indices: 26799716--26799740 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
26799706 TTAGTGGCGC
26799716 TTAAAAGTGCCGT
1 TTAAAAGTGCCGT
26799729 TTAAAAGTGCCG
1 TTAAAAGTGCCG
26799741 CTATAGGACT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.28
Consensus pattern (13 bp):
TTAAAAGTGCCGT
Found at i:26801288 original size:179 final size:179
Alignment explanation
Indices: 26800988--26801347 Score: 657
Period size: 179 Copynumber: 2.0 Consensus size: 179
26800978 GTGGTGGTGA
26800988 ATATGTTGAACCATTTGATGAATACTGTGCACAAAATGGTATTATTCATGAAGTGACACCACAAT
1 ATATGTTGAACCATTTGATGAATACTGTGCACAAAATGGTATTATTCATGAAGTGACACCACAAT
*
26801053 ACTCTCCTCAATCAAATGGAGTATCTGAACAAAAAATCAGACTCTGAAGGAAATGATGAACGCCT
66 ACTCTCCTCAATCAAATAGAGTATCTGAACAAAAAATCAGACTCTGAAGGAAATGATGAACGCCT
* *
26801118 TGCTACAAAGCTATGGGTTATAACAGGAAATGTAGGGGGGAACTTCTCT
131 TGCTACAAAGCTATGGGTTATAACAGGAAATGTAGGAGGAAACTTCTCT
* *
26801167 ATATGTTGAACCATTTGGTGAATACTGTGCACAAAATGGTATTATTCATGAAGTGACACCACTAT
1 ATATGTTGAACCATTTGATGAATACTGTGCACAAAATGGTATTATTCATGAAGTGACACCACAAT
* *
26801232 ACTCTCCTCAATCAAATAGAGTATCTGAACGAAAAATTAGACTCTGAAGGAAATGATGAACGCCT
66 ACTCTCCTCAATCAAATAGAGTATCTGAACAAAAAATCAGACTCTGAAGGAAATGATGAACGCCT
26801297 TGCTACAAAGCTATGGGTTATAACAGGAAATGTAGGAGGAAACTTCTCT
131 TGCTACAAAGCTATGGGTTATAACAGGAAATGTAGGAGGAAACTTCTCT
26801346 AT
1 AT
26801348 CAACTAATTA
Statistics
Matches: 174, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
179 174 1.00
ACGTcount: A:0.36, C:0.17, G:0.20, T:0.27
Consensus pattern (179 bp):
ATATGTTGAACCATTTGATGAATACTGTGCACAAAATGGTATTATTCATGAAGTGACACCACAAT
ACTCTCCTCAATCAAATAGAGTATCTGAACAAAAAATCAGACTCTGAAGGAAATGATGAACGCCT
TGCTACAAAGCTATGGGTTATAACAGGAAATGTAGGAGGAAACTTCTCT
Found at i:26803307 original size:23 final size:23
Alignment explanation
Indices: 26803279--26803388 Score: 68
Period size: 22 Copynumber: 4.8 Consensus size: 23
26803269 TTTCTTTTTC
26803279 ATTAT-TTTATTTATTTGTTTATT
1 ATTATATTTATTTATTT-TTTATT
* * * *
26803302 ATTATTCTTTTTTTATATTCTCTGTT
1 ATTA-TATTTATTTAT-TT-TTTATT
* *
26803328 ATTAT-TTT-TTTCTTTTTCTAGT
1 ATTATATTTATTTATTTTT-TATT
26803350 ATT-TATTTATTTATTTTTTATT
1 ATTATATTTATTTATTTTTTATT
* *
26803372 ATTCTAATTA-TTATTTT
1 ATTATATTTATTTATTTT
26803389 GCTTTTTAAT
Statistics
Matches: 69, Mismatches: 11, Indels: 15
0.73 0.12 0.16
Matches are distributed among these distances:
21 2 0.03
22 23 0.33
23 21 0.30
24 4 0.06
25 9 0.13
26 10 0.14
ACGTcount: A:0.20, C:0.05, G:0.03, T:0.72
Consensus pattern (23 bp):
ATTATATTTATTTATTTTTTATT
Found at i:26803654 original size:3 final size:3
Alignment explanation
Indices: 26803648--26803716 Score: 138
Period size: 3 Copynumber: 23.0 Consensus size: 3
26803638 TTCTTTTCCA
26803648 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
26803696 TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT
26803717 CATTCATTTT
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 66 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:26808215 original size:22 final size:21
Alignment explanation
Indices: 26808190--26808230 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
26808180 TAATATTCTA
26808190 ATTCAATAAATATTATTTATTT
1 ATTCAATAAAT-TTATTTATTT
*
26808212 ATTCAATAAATTTTTTTAT
1 ATTCAATAAATTTATTTAT
26808231 GAGTATTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.56
Consensus pattern (21 bp):
ATTCAATAAATTTATTTATTT
Found at i:26810071 original size:23 final size:24
Alignment explanation
Indices: 26810040--26810086 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
26810030 TATATTAATA
26810040 TAAAACTTAA-AATAATAAAAAAT
1 TAAAACTTAATAATAATAAAAAAT
* *
26810063 TAAATCTTAATATTAATAAAAAAT
1 TAAAACTTAATAATAATAAAAAAT
26810087 AATATATAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 9 0.43
24 12 0.57
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (24 bp):
TAAAACTTAATAATAATAAAAAAT
Found at i:26810867 original size:31 final size:30
Alignment explanation
Indices: 26810820--26810894 Score: 87
Period size: 31 Copynumber: 2.5 Consensus size: 30
26810810 AATTTTTAAA
* * *
26810820 TTAATAATAATAAAATTACACTTTAATTTT
1 TTAAAAATGATAAAATTACAATTTAATTTT
**
26810850 TATAAAAATGATAAAATTTTAATTTAATTTT
1 T-TAAAAATGATAAAATTACAATTTAATTTT
*
26810881 TTAAAAATTATAAA
1 TTAAAAATGATAAA
26810895 GATATAAATA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
30 13 0.34
31 25 0.66
ACGTcount: A:0.51, C:0.03, G:0.01, T:0.45
Consensus pattern (30 bp):
TTAAAAATGATAAAATTACAATTTAATTTT
Found at i:26811903 original size:18 final size:18
Alignment explanation
Indices: 26811880--26811923 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
26811870 TACCTTTTTC
**
26811880 TCTCTCAAATCTTTCTAT
1 TCTCTCAAATCTTTAAAT
*
26811898 TCTCTCAACTCTTTAAAT
1 TCTCTCAAATCTTTAAAT
26811916 TCTCTCAA
1 TCTCTCAA
26811924 TTTTCTCAAG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.25, C:0.30, G:0.00, T:0.45
Consensus pattern (18 bp):
TCTCTCAAATCTTTAAAT
Found at i:26817208 original size:108 final size:106
Alignment explanation
Indices: 26816895--26817212 Score: 428
Period size: 106 Copynumber: 3.0 Consensus size: 106
26816885 TCCATTGCTA
* * * *
26816895 ATGTTGAATTGCCCAAAACCCTAAATC-ATTTTTTCTAACAGTGAAGACGATGAAGAAAGGGAAA
1 ATGTTGAATTGCCTAAAACCCTAAATCTTTTTTTTCTAACAGTGAAAAAGATGAAGAAA-GGAAA
* *
26816959 AAAAT-AGGAAAATCAAATC-TCCTTGATGAGAAATTAAATAG
65 AAAATCAAGAAAATCAAATCTTCC-TGATGAGAAATTGAATAG
* * *
26817000 ATGTTGAATTACCTAAAACCCTAAATCTTTTTTTTCTAACAGT-AAAGAAGATAAAAAAAGGAAA
1 ATGTTGAATTGCCTAAAACCCTAAATCTTTTTTTTCTAACAGTGAAA-AAGATGAAGAAAGGAAA
* *
26817064 AAAATCAAGAAAATCAAATCTCCCTAATGAGAAATTGAATAG
65 AAAATCAAGAAAATCAAATCTTCCTGATGAGAAATTGAATAG
* * *
26817106 ATGTTGAATTGCTTAAAACCCTAAATCCTTTTTTTTCCTAACAATGAAAATGATGAAGAAAGGAA
1 ATGTTGAATTGCCTAAAACCCTAAAT-CTTTTTTTT-CTAACAGTGAAAAAGATGAAGAAAGGAA
*
26817171 AAAAATCAAGAAAATCAAATCTTCCTGATGAGTAATTGAATA
64 AAAAATCAAGAAAATCAAATCTTCCTGATGAGAAATTGAATA
26817213 ACCCAAAATC
Statistics
Matches: 186, Mismatches: 20, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
105 37 0.20
106 76 0.41
107 11 0.06
108 59 0.32
109 3 0.02
ACGTcount: A:0.46, C:0.13, G:0.14, T:0.27
Consensus pattern (106 bp):
ATGTTGAATTGCCTAAAACCCTAAATCTTTTTTTTCTAACAGTGAAAAAGATGAAGAAAGGAAAA
AAATCAAGAAAATCAAATCTTCCTGATGAGAAATTGAATAG
Found at i:26821206 original size:17 final size:17
Alignment explanation
Indices: 26821186--26821226 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
26821176 GTTACTATTA
*
26821186 ATTATTT-TATATATTTT
1 ATTATTTAT-TATATGTT
26821203 ATTATTTATTATATGTT
1 ATTATTTATTATATGTT
26821220 ATT-TTTA
1 ATTATTTA
26821227 AACCTAAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 4 0.18
17 17 0.77
18 1 0.05
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.68
Consensus pattern (17 bp):
ATTATTTATTATATGTT
Found at i:26822833 original size:2 final size:2
Alignment explanation
Indices: 26822826--26822863 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
26822816 ACAATAATAC
* *
26822826 TA TA TA TA AA TA TA TA TA TA TA TA TA TA TA TG TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
26822864 ATAGAAATAC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (2 bp):
TA
Found at i:26822964 original size:2 final size:2
Alignment explanation
Indices: 26822959--26822990 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
26822949 AAAACAATAC
*
26822959 TA TA TA TA TA TA TA TA TA TA TA TA TG TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
26822991 CATAAAATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:26823018 original size:10 final size:11
Alignment explanation
Indices: 26822960--26823019 Score: 50
Period size: 12 Copynumber: 5.3 Consensus size: 11
26822950 AAACAATACT
*
26822960 ATATATATATA
1 ATATATACATA
*
26822971 TATATATATATA
1 -ATATATACATA
*
26822983 TGTATATACATA
1 -ATATATACATA
*
26822995 AAATATACACTA
1 ATATATACA-TA
26823007 ATATATA-ATA
1 ATATATACATA
26823017 ATA
1 ATA
26823020 ATAGTGATAG
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
10 5 0.12
11 8 0.19
12 29 0.69
ACGTcount: A:0.53, C:0.05, G:0.02, T:0.40
Consensus pattern (11 bp):
ATATATACATA
Found at i:26823242 original size:3 final size:3
Alignment explanation
Indices: 26823229--26823314 Score: 65
Period size: 3 Copynumber: 28.3 Consensus size: 3
26823219 GAGGGCATAT
26823229 ATA AT- ATA ATA ATA AT- ATAA ATA ATA ATA TATA CATGA GA-A ATA
1 ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA -ATA -AT-A -ATA ATA
* *
26823273 ATA ATA ATA AT- ATAA ATA ATA GTA AAA ATA ATA A-A ATA ATA A
1 ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA A
26823315 AACAAAGATC
Statistics
Matches: 68, Mismatches: 6, Indels: 18
0.74 0.07 0.20
Matches are distributed among these distances:
2 9 0.13
3 48 0.71
4 9 0.13
5 2 0.03
ACGTcount: A:0.65, C:0.01, G:0.03, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:26823253 original size:12 final size:12
Alignment explanation
Indices: 26823229--26823311 Score: 73
Period size: 12 Copynumber: 6.8 Consensus size: 12
26823219 GAGGGCATAT
26823229 ATAATAT-AATA
1 ATAATATAAATA
26823240 ATAATATAAATA
1 ATAATATAAATA
26823252 ATAATATATACATGA
1 ATAATATA-A-AT-A
26823267 GA-AATA-ATAATA
1 -ATAATATA-AATA
26823279 ATAATATAAATA
1 ATAATATAAATA
* *
26823291 ATAGTAAAAATA
1 ATAATATAAATA
*
26823303 ATAAAATAA
1 ATAATATAA
26823312 TAAAACAAAG
Statistics
Matches: 60, Mismatches: 5, Indels: 13
0.77 0.06 0.17
Matches are distributed among these distances:
11 8 0.13
12 37 0.62
13 4 0.07
14 5 0.08
15 5 0.08
16 1 0.02
ACGTcount: A:0.65, C:0.01, G:0.04, T:0.30
Consensus pattern (12 bp):
ATAATATAAATA
Found at i:26823273 original size:21 final size:18
Alignment explanation
Indices: 26823234--26823314 Score: 76
Period size: 18 Copynumber: 4.4 Consensus size: 18
26823224 CATATATAAT
*
26823234 ATAATAATAATATAAATA
1 ATAATAATAATAGAAATA
26823252 ATAATATATACATGAGAAATA
1 ATAATA-ATA-AT-AGAAATA
*
26823273 ATAATAATAATATAAATA
1 ATAATAATAATAGAAATA
* *
26823291 ATAGTAAAAATA-ATAA-A
1 ATAATAATAATAGA-AATA
26823308 ATAATAA
1 ATAATAA
26823315 AACAAAGATC
Statistics
Matches: 54, Mismatches: 5, Indels: 9
0.79 0.07 0.13
Matches are distributed among these distances:
17 8 0.15
18 24 0.44
19 5 0.09
20 5 0.09
21 12 0.22
ACGTcount: A:0.65, C:0.01, G:0.04, T:0.30
Consensus pattern (18 bp):
ATAATAATAATAGAAATA
Found at i:26823302 original size:27 final size:27
Alignment explanation
Indices: 26823229--26823315 Score: 78
Period size: 27 Copynumber: 3.4 Consensus size: 27
26823219 GAGGGCATAT
* *
26823229 ATAATAT-AATAATAATATAAATAATA
1 ATAATATAAATAATAGTAAAAATAATA
* *
26823255 AT-ATATACAT--GAG-AAATAATAATA
1 ATAATATAAATAATAGTAAA-AATAATA
26823279 ATAATATAAATAATAGTAAAAATAATA
1 ATAATATAAATAATAGTAAAAATAATA
26823306 A-AATAATAAA
1 ATAAT-ATAAA
26823316 ACAAAGATCT
Statistics
Matches: 48, Mismatches: 6, Indels: 13
0.72 0.09 0.19
Matches are distributed among these distances:
23 2 0.04
24 10 0.21
25 11 0.23
26 7 0.15
27 15 0.31
28 3 0.06
ACGTcount: A:0.66, C:0.01, G:0.03, T:0.30
Consensus pattern (27 bp):
ATAATATAAATAATAGTAAAAATAATA
Found at i:26823694 original size:23 final size:23
Alignment explanation
Indices: 26823624--26823695 Score: 65
Period size: 23 Copynumber: 3.0 Consensus size: 23
26823614 CCTTTCCAAG
*
26823624 AAACAAAAACAACCTTCTTTCCAAAA
1 AAACAAAAA-AACC-TC-TCCCAAAA
* * *
26823650 AAACAAAAAAAAACAC-CTCAAAA
1 AAAC-AAAAAAACCTCTCCCAAAA
26823673 AAACAAAAAAACCTCTCCCAAAA
1 AAACAAAAAAACCTCTCCCAAAA
26823696 CAAAGAACAA
Statistics
Matches: 37, Mismatches: 7, Indels: 7
0.73 0.14 0.14
Matches are distributed among these distances:
22 9 0.24
23 15 0.41
25 1 0.03
26 7 0.19
27 5 0.14
ACGTcount: A:0.62, C:0.26, G:0.00, T:0.11
Consensus pattern (23 bp):
AAACAAAAAAACCTCTCCCAAAA
Found at i:26823714 original size:24 final size:20
Alignment explanation
Indices: 26823671--26823719 Score: 53
Period size: 24 Copynumber: 2.2 Consensus size: 20
26823661 AACACCTCAA
26823671 AAAAACAAAAAAACCTCTCC
1 AAAAACAAAAAAACCTCTCC
*
26823691 CAAAACAAAGAACAATCCTTCTCC
1 AAAAACAAA-AA-AA-CC-TCTCC
26823715 AAAAA
1 AAAAA
26823720 ACCAAAAACC
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
20 8 0.35
21 2 0.09
22 2 0.09
23 2 0.09
24 9 0.39
ACGTcount: A:0.57, C:0.29, G:0.02, T:0.12
Consensus pattern (20 bp):
AAAAACAAAAAAACCTCTCC
Found at i:26824294 original size:44 final size:44
Alignment explanation
Indices: 26824241--26824705 Score: 469
Period size: 44 Copynumber: 10.6 Consensus size: 44
26824231 TCTTCGATCC
* *
26824241 GTTCTCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTT
1 GTTCCCTATAAGCACAGGGATGCCAAATCTGATATTTTCAACTT
* *
26824285 GTTCCCTATAAGCACAAGGATGCCAAATCTGATGTTTTCAACTT
1 GTTCCCTATAAGCACAGGGATGCCAAATCTGATATTTTCAACTT
* * *
26824329 GTTCCCTATAAGCACAGGGATGCC--ATGCTGAAATCTTTGATC-T
1 GTTCCCTATAAGCACAGGGATGCCAAAT-CTGATAT-TTTCAACTT
* * * * * * * * *
26824372 GTTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATTT
1 G-TTCCCTATAAGCACAGGGATGCCAAATCTGATATTTTCAACTT
*
26824417 GTTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTT
1 GTTCCCTATAAGCACAGGGATGCCAAATCTGATATTTTCAACTT
* * *
26824461 GTTCCCTATAAGCACAGGGATGCC--ATGCTGAAATCTTTGATC-T
1 GTTCCCTATAAGCACAGGGATGCCAAAT-CTGATAT-TTTCAACTT
* * * ** * * * *
26824504 GTTTCACTGTAAGCACAGGAATGTTAGATCT-ACTATCTTCGATTT
1 G-TTCCCTATAAGCACAGGGATGCCAAATCTGA-TATTTTCAACTT
* * * *
26824549 GTTCCCTATAAGCACAGGGATGCCAAATCTGCTATCTTCGA-TCC
1 GTTCCCTATAAGCACAGGGATGCCAAATCTGATATTTTCAACT-T
* *
26824593 GTTCCCTATAAGCACAGGGATGCCAAATCTGTTGTTTTCAACTT
1 GTTCCCTATAAGCACAGGGATGCCAAATCTGATATTTTCAACTT
* *
26824637 GTTCCCTATAAGCACAAGGATGCCAAATCTGATGTTTTCAACTT
1 GTTCCCTATAAGCACAGGGATGCCAAATCTGATATTTTCAACTT
26824681 GTTCCCTATAAGCACAGGGATGCCA
1 GTTCCCTATAAGCACAGGGATGCCA
26824706 TGCTGAAATC
Statistics
Matches: 346, Mismatches: 59, Indels: 32
0.79 0.14 0.07
Matches are distributed among these distances:
42 4 0.01
43 15 0.04
44 309 0.89
45 14 0.04
46 4 0.01
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.32
Consensus pattern (44 bp):
GTTCCCTATAAGCACAGGGATGCCAAATCTGATATTTTCAACTT
Found at i:26824484 original size:176 final size:176
Alignment explanation
Indices: 26824185--26824764 Score: 803
Period size: 176 Copynumber: 3.3 Consensus size: 176
26824175 GATATTCGCT
* * *
26824185 ATCTTTGATCTGCTTCACTGTAAGCACAGGAATTTCAGATTTGCTATCTTCGATCCGTTCTCTAT
1 ATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATCCGTTCCCTAT
26824250 AAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAAGGATGCCAAATCT
66 AAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAAGGATGCCAAATCT
26824315 GATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAA
131 GATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAA
* **
26824361 ATCTTTGATCTGTTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATTTGTTCCCTAT
1 ATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATCCGTTCCCTAT
*
26824426 AAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCC--ATGC
66 AAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAAGGATGCCAAAT-C
** * * * * * ** *
26824489 TGAAATCTTTGATC-TGTTTCACTGTAAGCACAGGAATGTTA-GATCT-ACT
130 TGATGT-TTTCAACTTG-TTCCCTATAAGCACAGGGATGCCATG--CTGA-A
* * * * * * *
26824538 ATCTTCGATTTG-TTCCCTATAAGCACAGGGATGCCAAATCTGCTATCTTCGATCCGTTCCCTAT
1 ATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATCCGTTCCCTAT
*
26824602 AAGCACAGGGATGCCAAATCTGTTGTTTTCAACTTGTTCCCTATAAGCACAAGGATGCCAAATCT
66 AAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAAGGATGCCAAATCT
26824667 GATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAA
131 GATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAA
* * * *
26824713 ATCTTGGATCTACTTCACTGTAAGCACAGGAATATCAGATCTTCTATCTTCG
1 ATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCG
26824765 GTCTTCTCCT
Statistics
Matches: 344, Mismatches: 48, Indels: 24
0.83 0.12 0.06
Matches are distributed among these distances:
174 2 0.01
175 19 0.06
176 301 0.88
177 20 0.06
178 2 0.01
ACGTcount: A:0.26, C:0.23, G:0.18, T:0.33
Consensus pattern (176 bp):
ATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATCCGTTCCCTAT
AAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAAGGATGCCAAATCT
GATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAA
Found at i:26824652 original size:132 final size:132
Alignment explanation
Indices: 26824283--26824617 Score: 582
Period size: 132 Copynumber: 2.5 Consensus size: 132
26824273 TGTTTTCAAC
*
26824283 TTGTTCCCTATAAGCACAAGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGG
1 TTGTTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGG
*
26824348 ATGCCATGCTGAAATCTTTGATCTGTTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCG
66 ATGCCATGCTGAAATCTTTGATCTGTTTCACTGTAAGCACAGGAATGTCAGATCTACTATCTTCG
26824413 AT
131 AT
26824415 TTGTTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGG
1 TTGTTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGG
*
26824480 ATGCCATGCTGAAATCTTTGATCTGTTTCACTGTAAGCACAGGAATGTTAGATCTACTATCTTCG
66 ATGCCATGCTGAAATCTTTGATCTGTTTCACTGTAAGCACAGGAATGTCAGATCTACTATCTTCG
26824545 AT
131 AT
* * * * *
26824547 TTGTTCCCTATAAGCACAGGGATGCCAAATCTGCTATCTTCGA-TCCGTTCCCTATAAGCACAGG
1 TTGTTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACT-TGTTCCCTATAAGCACAGG
26824611 GATGCCA
65 GATGCCA
26824618 AATCTGTTGT
Statistics
Matches: 194, Mismatches: 8, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
131 1 0.01
132 193 0.99
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.32
Consensus pattern (132 bp):
TTGTTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGG
ATGCCATGCTGAAATCTTTGATCTGTTTCACTGTAAGCACAGGAATGTCAGATCTACTATCTTCG
AT
Found at i:26824683 original size:132 final size:132
Alignment explanation
Indices: 26824246--26824705 Score: 563
Period size: 132 Copynumber: 3.5 Consensus size: 132
26824236 GATCCGTTCT
* * * *
26824246 CTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAAGGATGCCAA
1 CTATAAGCACAGGAATGCCAAATCTGATATCTTCAACTTGTTCCCTATAAGCACAGGGATGCCAA
26824311 ATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTTGATCTGTTT
66 ATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTTGATCTGTTT
26824376 CA
131 CA
* * * * * *
26824378 CTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATTTGTTCCCTATAAGCACAGGGATGCCAA
1 CTATAAGCACAGGAATGCCAAATCTGATATCTTCAACTTGTTCCCTATAAGCACAGGGATGCCAA
26824443 ATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTTGATCTGTTT
66 ATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTTGATCTGTTT
26824508 CA
131 CA
* ** * * *
26824510 CTGTAAGCACAGGAATGTTAGATCT-ACTATCTTCGATTTGTTCCCTATAAGCACAGGGATGCCA
1 CTATAAGCACAGGAATGCCAAATCTGA-TATCTTCAACTTGTTCCCTATAAGCACAGGGATGCCA
* * * * * *** * *
26824574 AATCTGCTATCTTCGA-TCCGTTCCCTATAAGCACAGGGATGCCAAAT-CTGTTGT-TTTCAACT
65 AATCTGATGTTTTCAACT-TGTTCCCTATAAGCACAGGGATGCC--ATGCTGAAATCTTTGATCT
*
26824636 -TGTTCC
127 GT-TTCA
* *
26824642 CTATAAGCACAAGG-ATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCA
1 CTATAAGCAC-AGGAATGCCAAATCTGATATCTTCAACTTGTTCCCTATAAGCACAGGGATGCCA
26824706 TGCTGAAATC
Statistics
Matches: 290, Mismatches: 31, Indels: 14
0.87 0.09 0.04
Matches are distributed among these distances:
131 2 0.01
132 278 0.96
133 8 0.03
134 2 0.01
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.32
Consensus pattern (132 bp):
CTATAAGCACAGGAATGCCAAATCTGATATCTTCAACTTGTTCCCTATAAGCACAGGGATGCCAA
ATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTTGATCTGTTT
CA
Found at i:26824927 original size:68 final size:68
Alignment explanation
Indices: 26824817--26825015 Score: 276
Period size: 68 Copynumber: 2.9 Consensus size: 68
26824807 TCTTTTTCCA
* * * * *
26824817 CTGAAACTTCAAGGAGATCTGCTGTAGCTTTTAGCCTCTCCAATGCCATTTCTGGAAGAAGAGGT
1 CTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCAATGCCATTTCAGGAAGAAAAGAT
*
26824882 -TT
66 CCT
* * *
26824884 GTTGAAACTTCAAGGAGATCTGTTGTGGCTTTTAGCCGCTCCAACGCCATTTCAGGAAGAAAAGA
1 -CTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCAATGCCATTTCAGGAAGAAAAGA
26824949 TCCT
65 TCCT
* *
26824953 CTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAGCTGCTCCAATGCCATTTCAGGGA-AAAAGA
1 CTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCAATGCCATTTCAGGAAGAAAAGA
26825016 AATTTGTAAT
Statistics
Matches: 116, Mismatches: 14, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
67 6 0.05
68 109 0.94
69 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.29
Consensus pattern (68 bp):
CTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCAATGCCATTTCAGGAAGAAAAGAT
CCT
Found at i:26825184 original size:45 final size:45
Alignment explanation
Indices: 26825087--26826063 Score: 623
Period size: 43 Copynumber: 22.4 Consensus size: 45
26825077 CTATTTCCCA
* * *
26825087 ACTGCTTAAGAGGTTAAGATCTGTAAA--TTCAACCTGTTACCCT
1 ACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCT
* *
26825130 ACTGGTTAGGGGGTTAAGATTTGTAAATCTTCAGCCTGTTACCCT
1 ACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCT
* * * * *
26825175 ACTGCTTAGGGGTTTAAGGTTTGTAAA--TTCGGCTTGTTACCCT
1 ACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCT
* ** * * * * * *
26825218 ACTGCTTAGGGGGGTTAA-AGCCCATCATTTTTTA-TCTGTTTCCCT
1 ACTGCTTA-GGGGGTTAAGA-TCTGTAAATCTTCAGCCTGTTACCCT
* *
26825263 ACTGCTTAAGGGGTTAAGATCTGTAAATCTTTAGCCTGTTACCCT
1 ACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCT
* * * *
26825308 ACTGCTTAGGGGTTTAAG-GCTTGTAAA--TTCGGCTTGTTACCCT
1 ACTGCTTAGGGGGTTAAGATC-TGTAAATCTTCAGCCTGTTACCCT
* ** * * * *
26825351 ACTGCTTA-GGGGTTAA-AGC-CCATCATCTT-TGATCTGTTTCCCT
1 ACTGCTTAGGGGGTTAAGATCTGTA-AATCTTCAG-CCTGTTACCCT
26825394 ACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCT
1 ACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCT
* * *
26825439 ACTGCTTA-GGGGTTAAG-GCTTGTAAAT-TT-GGCTTGTTACCCT
1 ACTGCTTAGGGGGTTAAGATC-TGTAAATCTTCAGCCTGTTACCCT
* ** * * * *
26825481 ACTGCTTAGGGGGTTAA-AGC-CCATCATCTT-TGATCTGTTTCCCT
1 ACTGCTTAGGGGGTTAAGATCTGTA-AATCTTCAG-CCTGTTACCCT
*
26825525 ATTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCT
1 ACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCT
* * * *
26825570 ACTGCTTAAGGGGTTAAG-GCTTGTAAAT-TT-GGCTTGTTACCCT
1 ACTGCTTAGGGGGTTAAGATC-TGTAAATCTTCAGCCTGTTACCCT
* * ** * * *
26825613 ACTGCTTAAGGGGTTAA-AGC-CCATCATCTTC-GATCTGTTTCCCT
1 ACTGCTTAGGGGGTTAAGATCTGTA-AATCTTCAG-CCTGTTACCCT
* * *
26825657 ACTGCTTAGGGGGTTAAGATCT-T-CATCTTC-GATCTGTTTCCCT
1 ACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAG-CCTGTTACCCT
* * * *
26825700 ACTGCTTAGGGAGATAAGATC--TACAA--TTCGGTCTGTTACCCT
1 ACTGCTTAGGGGGTTAAGATCTGTA-AATCTTCAGCCTGTTACCCT
* * * * ** * *
26825742 ACCGATTAGGGGTTTAAGACCCT-T-CGTCTTC-GATCTGTTTCCCT
1 ACTGCTTAGGGGGTTAAGA-TCTGTAAATCTTCAG-CCTGTTACCCT
*
26825786 ACTGCTTA-GGGGTTAAGATCTGTAAATCTTCAGTCTGTTACCCT
1 ACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCT
* * *
26825830 ACTGCTTAGGGGGTTAAG-GCTTGTAAA--TT-GGCTTGTTACCCT
1 ACTGCTTAGGGGGTTAAGATC-TGTAAATCTTCAGCCTGTTACCCT
* * *
26825872 ACTGCTTAGGGGGTTAAGATCT-T-CATCTTC-GATCTGTTTCCCT
1 ACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAG-CCTGTTACCCT
* * * * *
26825915 ACTGCTTAGGGAGATAAGATCTG-CAA--TTCGGTCTGTTACCCT
1 ACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCT
* * * * ** * *
26825957 ACCGATTAGGGGTTTAAGACCCT-T-CGTCTTC-GATCTGTTTCCCT
1 ACTGCTTAGGGGGTTAAGA-TCTGTAAATCTTCAG-CCTGTTACCCT
26826001 ACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCT
1 ACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCT
*
26826046 ACTGCTTAGGGGCTTAAG
1 ACTGCTTAGGGGGTTAAG
26826064 GCTTGTGAAT
Statistics
Matches: 734, Mismatches: 136, Indels: 126
0.74 0.14 0.13
Matches are distributed among these distances:
40 2 0.00
41 4 0.01
42 122 0.17
43 222 0.30
44 178 0.24
45 199 0.27
46 7 0.01
ACGTcount: A:0.21, C:0.21, G:0.22, T:0.36
Consensus pattern (45 bp):
ACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCT
Found at i:26825432 original size:131 final size:131
Alignment explanation
Indices: 26825120--26825970 Score: 1181
Period size: 131 Copynumber: 6.5 Consensus size: 131
26825110 TAAATTCAAC
* * *
26825120 CTGTTACCCTACTGGTTAGGGGGTTAAGATTTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGG
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGG
* * *
26825185 GGTTTAAGGTTTGTAAATTCGGCTTGTTACCCTACTGCTTAGGGGGGTTAAAGCCCATCATTTTT
66 GG-TTAAGGCTTGTAAATTCGGCTTGTTACCCTACTGCTTA-GGGGGTTAAAGCCCATCATCTTC
*
26825250 TAT
129 GAT
* *
26825253 CTGTTTCCCTACTGCTTAAGGGGTTAAGATCTGTAAATCTTTAGCCTGTTACCCTACTGCTTAGG
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGG
*
26825318 GGTTTAAGGCTTGTAAATTCGGCTTGTTACCCTACTGCTTA-GGGGTTAAAGCCCATCATCTTTG
66 GG-TTAAGGCTTGTAAATTCGGCTTGTTACCCTACTGCTTAGGGGGTTAAAGCCCATCATCTTCG
26825382 AT
130 AT
26825384 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGG
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGG
* *
26825449 GGTTAAGGCTTGTAAATTTGGCTTGTTACCCTACTGCTTAGGGGGTTAAAGCCCATCATCTTTGA
66 GGTTAAGGCTTGTAAATTCGGCTTGTTACCCTACTGCTTAGGGGGTTAAAGCCCATCATCTTCGA
26825514 T
131 T
*
26825515 CTGTTTCCCTATTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAAG
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTT-AG
* *
26825580 GGGTTAAGGCTTGTAAATTTGGCTTGTTACCCTACTGCTTAAGGGGTTAAAGCCCATCATCTTCG
65 GGGTTAAGGCTTGTAAATTCGGCTTGTTACCCTACTGCTTAGGGGGTTAAAGCCCATCATCTTCG
26825645 AT
130 AT
* * *
26825647 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCT-T-CATCTTC-GATCTGTTTCCCTACTGCTTAG
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAG-CCTGTTACCCTACTGCTTAG
* * * * * * * *
26825709 GGAGATAA-G-ATCTACAATTCGG-TCTGTTACCCTACCGATTA-GGGGTTTAAGACCCTTCGTC
65 GG-GTTAAGGCTTGTA-AATTCGGCT-TGTTACCCTACTGCTTAGGGGGTTAAAG-CCCATCATC
26825770 TTCGAT
126 TTCGAT
*
26825776 CTGTTTCCCTACTGCTTA-GGGGTTAAGATCTGTAAATCTTCAGTCTGTTACCCTACTGCTTAGG
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTA-G
** *
26825840 GGGTTAAGGCTTGTAAATT-GGCTTGTTACCCTACTGCTTAGGGGGTT-AAGATCTTCATCTTCG
65 GGGTTAAGGCTTGTAAATTCGGCTTGTTACCCTACTGCTTAGGGGGTTAAAGCCCATCATCTTCG
26825903 AT
130 AT
* * * * * * *
26825905 CTGTTTCCCTACTGCTTAGGGAGATAAGATCTG-CAA--TTCGGTCTGTTACCCTACCGATTAGG
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGG
26825967 GGTT
66 GGTT
26825971 TAAGACCCTT
Statistics
Matches: 659, Mismatches: 43, Indels: 39
0.89 0.06 0.05
Matches are distributed among these distances:
126 6 0.01
127 21 0.03
128 26 0.04
129 91 0.14
130 123 0.19
131 191 0.29
132 101 0.15
133 100 0.15
ACGTcount: A:0.20, C:0.21, G:0.22, T:0.36
Consensus pattern (131 bp):
CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGG
GGTTAAGGCTTGTAAATTCGGCTTGTTACCCTACTGCTTAGGGGGTTAAAGCCCATCATCTTCGA
T
Found at i:26826233 original size:66 final size:66
Alignment explanation
Indices: 26826127--26826253 Score: 227
Period size: 66 Copynumber: 1.9 Consensus size: 66
26826117 TCTATGCTTA
* *
26826127 TGTCAAATGATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTGTTATGAAT
1 TGTCAAATAATTAGGATACTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTGTTATGAAT
26826192 G
66 G
*
26826193 TGTCAAATAATTAGGATACTATGATTGAAATGAATCAAATGCTCCTAACTAGATGTGTTAT
1 TGTCAAATAATTAGGATACTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTGTTAT
26826254 TATATGAATG
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
66 58 1.00
ACGTcount: A:0.36, C:0.12, G:0.19, T:0.33
Consensus pattern (66 bp):
TGTCAAATAATTAGGATACTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTGTTATGAAT
G
Found at i:26827464 original size:6 final size:6
Alignment explanation
Indices: 26827433--26827462 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
26827423 TTTTTTTTTT
*
26827433 TTTGCC TTTGCC TTTGCC TTTGCC ATTGCC
1 TTTGCC TTTGCC TTTGCC TTTGCC TTTGCC
26827463 ATATAACTCC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.03, C:0.33, G:0.17, T:0.47
Consensus pattern (6 bp):
TTTGCC
Found at i:26831327 original size:2 final size:2
Alignment explanation
Indices: 26831322--26831367 Score: 74
Period size: 2 Copynumber: 23.0 Consensus size: 2
26831312 AAAATAATAC
* *
26831322 TA TA TA TA AA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TG TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
26831364 TA TA
1 TA TA
26831368 CATAAAAATA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (2 bp):
TA
Found at i:26831396 original size:10 final size:11
Alignment explanation
Indices: 26831315--26831397 Score: 66
Period size: 10 Copynumber: 7.5 Consensus size: 11
26831305 GTAATAAAAA
26831315 ATAATACTATAT
1 ATAATA-TATAT
26831327 ATAA-ATATAT
1 ATAATATATAT
26831337 AT-ATATATAT
1 ATAATATATAT
26831347 AT-ATATATAT
1 ATAATATATAT
* *
26831357 ATATGTATATAC
1 ATA-ATATATAT
* *
26831369 ATAAAAATATAC
1 AT-AATATATAT
26831381 ACTAATATATA-
1 A-TAATATATAT
26831392 ATAATA
1 ATAATA
26831398 ATGGTGATAG
Statistics
Matches: 61, Mismatches: 5, Indels: 12
0.78 0.06 0.15
Matches are distributed among these distances:
9 1 0.02
10 30 0.49
11 2 0.03
12 26 0.43
13 2 0.03
ACGTcount: A:0.54, C:0.05, G:0.01, T:0.40
Consensus pattern (11 bp):
ATAATATATAT
Found at i:26831619 original size:3 final size:3
Alignment explanation
Indices: 26831606--26831691 Score: 65
Period size: 3 Copynumber: 28.3 Consensus size: 3
26831596 GAGGGCATAT
26831606 ATA AT- ATA ATA ATA AT- ATAA ATA ATA ATA TATA CATGA GA-A ATA
1 ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA -ATA -AT-A -ATA ATA
* *
26831650 ATA ATA ATA AT- ATAA ATA ATA GTA AAA ATA ATA A-A ATA ATA A
1 ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA A
26831692 AACAAAGCTC
Statistics
Matches: 68, Mismatches: 6, Indels: 18
0.74 0.07 0.20
Matches are distributed among these distances:
2 9 0.13
3 48 0.71
4 9 0.13
5 2 0.03
ACGTcount: A:0.65, C:0.01, G:0.03, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:26831630 original size:12 final size:12
Alignment explanation
Indices: 26831606--26831688 Score: 73
Period size: 12 Copynumber: 6.8 Consensus size: 12
26831596 GAGGGCATAT
26831606 ATAATAT-AATA
1 ATAATATAAATA
26831617 ATAATATAAATA
1 ATAATATAAATA
26831629 ATAATATATACATGA
1 ATAATATA-A-AT-A
26831644 GA-AATA-ATAATA
1 -ATAATATA-AATA
26831656 ATAATATAAATA
1 ATAATATAAATA
* *
26831668 ATAGTAAAAATA
1 ATAATATAAATA
*
26831680 ATAAAATAA
1 ATAATATAA
26831689 TAAAACAAAG
Statistics
Matches: 60, Mismatches: 5, Indels: 13
0.77 0.06 0.17
Matches are distributed among these distances:
11 8 0.13
12 37 0.62
13 4 0.07
14 5 0.08
15 5 0.08
16 1 0.02
ACGTcount: A:0.65, C:0.01, G:0.04, T:0.30
Consensus pattern (12 bp):
ATAATATAAATA
Found at i:26831650 original size:21 final size:18
Alignment explanation
Indices: 26831611--26831691 Score: 76
Period size: 18 Copynumber: 4.4 Consensus size: 18
26831601 CATATATAAT
*
26831611 ATAATAATAATATAAATA
1 ATAATAATAATAGAAATA
26831629 ATAATATATACATGAGAAATA
1 ATAATA-ATA-AT-AGAAATA
*
26831650 ATAATAATAATATAAATA
1 ATAATAATAATAGAAATA
* *
26831668 ATAGTAAAAATA-ATAA-A
1 ATAATAATAATAGA-AATA
26831685 ATAATAA
1 ATAATAA
26831692 AACAAAGCTC
Statistics
Matches: 54, Mismatches: 5, Indels: 9
0.79 0.07 0.13
Matches are distributed among these distances:
17 8 0.15
18 24 0.44
19 5 0.09
20 5 0.09
21 12 0.22
ACGTcount: A:0.65, C:0.01, G:0.04, T:0.30
Consensus pattern (18 bp):
ATAATAATAATAGAAATA
Found at i:26831679 original size:27 final size:27
Alignment explanation
Indices: 26831606--26831692 Score: 78
Period size: 27 Copynumber: 3.4 Consensus size: 27
26831596 GAGGGCATAT
* *
26831606 ATAATAT-AATAATAATATAAATAATA
1 ATAATATAAATAATAGTAAAAATAATA
* *
26831632 AT-ATATACAT--GAG-AAATAATAATA
1 ATAATATAAATAATAGTAAA-AATAATA
26831656 ATAATATAAATAATAGTAAAAATAATA
1 ATAATATAAATAATAGTAAAAATAATA
26831683 A-AATAATAAA
1 ATAAT-ATAAA
26831693 ACAAAGCTCT
Statistics
Matches: 48, Mismatches: 6, Indels: 13
0.72 0.09 0.19
Matches are distributed among these distances:
23 2 0.04
24 10 0.21
25 11 0.23
26 7 0.15
27 15 0.31
28 3 0.06
ACGTcount: A:0.66, C:0.01, G:0.03, T:0.30
Consensus pattern (27 bp):
ATAATATAAATAATAGTAAAAATAATA
Found at i:26832046 original size:20 final size:21
Alignment explanation
Indices: 26832023--26832071 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 21
26832013 TCTTTCCAAA
26832023 AAAACAAAAAAAACAC-CT-CC
1 AAAACAAAAAAAAC-CTCTCCC
26832043 AAAA-AACAAAAAACCTCTCCC
1 AAAACAA-AAAAAACCTCTCCC
26832064 AAAACAAA
1 AAAACAAA
26832072 GAACAATCCT
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
19 3 0.12
20 13 0.52
21 7 0.28
22 2 0.08
ACGTcount: A:0.65, C:0.29, G:0.00, T:0.06
Consensus pattern (21 bp):
AAAACAAAAAAAACCTCTCCC
Found at i:26832534 original size:15 final size:15
Alignment explanation
Indices: 26832514--26832545 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
26832504 GTTTGGGCAT
26832514 TCGATAGCTAGATGA
1 TCGATAGCTAGATGA
26832529 TCGATAGCTAGATGA
1 TCGATAGCTAGATGA
26832544 TC
1 TC
26832546 AAAATACCTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.31, C:0.16, G:0.25, T:0.28
Consensus pattern (15 bp):
TCGATAGCTAGATGA
Found at i:26833820 original size:99 final size:99
Alignment explanation
Indices: 26833649--26833838 Score: 362
Period size: 99 Copynumber: 1.9 Consensus size: 99
26833639 AATTTATATG
26833649 ATTAAGATTTGAGTTTGGAGTTAAAATTAATTGAAACAAAGAATTAACTAAAAGCTTACAAATTT
1 ATTAAGATTTGAGTTTGGAGTTAAAATTAATTGAAACAAAGAATTAACTAAAAGCTTACAAATTT
26833714 TATTGAAATTTAAATTCCATATATTAGCTGAAGT
66 TATTGAAATTTAAATTCCATATATTAGCTGAAGT
*
26833748 ATTAAGATTTGAGTTTGGAGTTAAAATTAATTGAAACAAAGAATTAACTAAAAGTTTACAAATTT
1 ATTAAGATTTGAGTTTGGAGTTAAAATTAATTGAAACAAAGAATTAACTAAAAGCTTACAAATTT
*
26833813 TATTGAAATTTAAATTTCATATATTA
66 TATTGAAATTTAAATTCCATATATTA
26833839 ACTTAGTTAT
Statistics
Matches: 89, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
99 89 1.00
ACGTcount: A:0.44, C:0.06, G:0.12, T:0.38
Consensus pattern (99 bp):
ATTAAGATTTGAGTTTGGAGTTAAAATTAATTGAAACAAAGAATTAACTAAAAGCTTACAAATTT
TATTGAAATTTAAATTCCATATATTAGCTGAAGT
Found at i:26834074 original size:22 final size:23
Alignment explanation
Indices: 26834046--26834098 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
26834036 AATTATGATT
* *
26834046 AATTTTAATTATAT-TTAAATAA
1 AATTTTAAGTATATATTAAAAAA
*
26834068 AATTTTAAGTATTTATTAAAAAA
1 AATTTTAAGTATATATTAAAAAA
26834091 AATTTTAA
1 AATTTTAA
26834099 AATTTTTAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
22 12 0.44
23 15 0.56
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (23 bp):
AATTTTAAGTATATATTAAAAAA
Found at i:26834106 original size:24 final size:23
Alignment explanation
Indices: 26834046--26834107 Score: 67
Period size: 22 Copynumber: 2.8 Consensus size: 23
26834036 AATTATGATT
* * *
26834046 AATTTTAATTATAT-TTAAATAA
1 AATTTTAAATATTTATTAAAAAA
*
26834068 AATTTTAAGTATTTATTAAAAAA
1 AATTTTAAATATTTATTAAAAAA
26834091 AATTTTAAA-ATTT-TTAA
1 AATTTTAAATATTTATTAA
26834108 TACTTTGTGA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
21 4 0.11
22 16 0.46
23 15 0.43
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (23 bp):
AATTTTAAATATTTATTAAAAAA
Found at i:26834403 original size:21 final size:21
Alignment explanation
Indices: 26834374--26834416 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
26834364 TATTCATTTA
* *
26834374 TTAATCCAAAGGAAAATACTT
1 TTAACCCAAAAGAAAATACTT
26834395 TTAACCCAAAAGAAAATACTT
1 TTAACCCAAAAGAAAATACTT
26834416 T
1 T
26834417 GAAAAAGTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.49, C:0.16, G:0.07, T:0.28
Consensus pattern (21 bp):
TTAACCCAAAAGAAAATACTT
Found at i:26839068 original size:23 final size:23
Alignment explanation
Indices: 26839038--26839086 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
26839028 ATCTTTTATT
26839038 GATGTATATAGTAGATATACATG
1 GATGTATATAGTAGATATACATG
26839061 GATGTATATAGTAGATATACATG
1 GATGTATATAGTAGATATACATG
26839084 GAT
1 GAT
26839087 TTATCTCTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.39, C:0.04, G:0.22, T:0.35
Consensus pattern (23 bp):
GATGTATATAGTAGATATACATG
Found at i:26844341 original size:20 final size:20
Alignment explanation
Indices: 26844304--26844341 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
26844294 ATTAGGATAA
*
26844304 TTATTTATTTTTAATTATAT
1 TTATTTATTTGTAATTATAT
*
26844324 TTATTTATTTGTATTTAT
1 TTATTTATTTGTAATTAT
26844342 CTTTTAGAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (20 bp):
TTATTTATTTGTAATTATAT
Found at i:26845039 original size:18 final size:18
Alignment explanation
Indices: 26845016--26845052 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
26845006 TGGAATCTCG
26845016 CCACATAAGAAACTCTTT
1 CCACATAAGAAACTCTTT
26845034 CCACATAAGAAACTCTTT
1 CCACATAAGAAACTCTTT
26845052 C
1 C
26845053 TTTTCCCAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.38, C:0.30, G:0.05, T:0.27
Consensus pattern (18 bp):
CCACATAAGAAACTCTTT
Found at i:26848186 original size:16 final size:18
Alignment explanation
Indices: 26848165--26848250 Score: 80
Period size: 16 Copynumber: 5.2 Consensus size: 18
26848155 AGGCAACCTA
*
26848165 ATTTTTAT-TT-TTTTTT
1 ATTTTTATCTTATTATTT
26848181 ATTTTTATCTTATTATTT
1 ATTTTTATCTTATTATTT
26848199 A--TTTATCTTATTATTT
1 ATTTTTATCTTATTATTT
*
26848215 A--TTTAT-TCATTACTTT
1 ATTTTTATCTTATTA-TTT
*
26848231 A-TTTTATTTTATTATTT
1 ATTTTTATCTTATTATTT
26848248 ATT
1 ATT
26848251 ACTTTATTTT
Statistics
Matches: 61, Mismatches: 3, Indels: 10
0.82 0.04 0.14
Matches are distributed among these distances:
15 5 0.08
16 33 0.54
17 11 0.18
18 12 0.20
ACGTcount: A:0.22, C:0.05, G:0.00, T:0.73
Consensus pattern (18 bp):
ATTTTTATCTTATTATTT
Found at i:26848202 original size:4 final size:4
Alignment explanation
Indices: 26848168--26848259 Score: 58
Period size: 4 Copynumber: 23.8 Consensus size: 4
26848158 CAACCTAATT
26848168 TTTA TTT- TTT- TTTA -TT- TTTA TCTTA -TTA TTTA TTTA TCTTA -TTA
1 TTTA TTTA TTTA TTTA TTTA TTTA T-TTA TTTA TTTA TTTA T-TTA TTTA
*
26848212 TTTA TTTA TTCA -TTA CTTTA TTTTA TTT- TATTA TTTA -TTA CTTTA
1 TTTA TTTA TTTA TTTA -TTTA -TTTA TTTA T-TTA TTTA TTTA -TTTA
26848257 TTT
1 TTT
26848260 TGTTTGGGTG
Statistics
Matches: 72, Mismatches: 3, Indels: 26
0.71 0.03 0.26
Matches are distributed among these distances:
3 22 0.31
4 33 0.46
5 17 0.24
ACGTcount: A:0.22, C:0.05, G:0.00, T:0.73
Consensus pattern (4 bp):
TTTA
Found at i:26848232 original size:20 final size:16
Alignment explanation
Indices: 26848184--26848250 Score: 91
Period size: 16 Copynumber: 4.1 Consensus size: 16
26848174 TTTTTTTATT
26848184 TTTATCTTATTATTTA
1 TTTATCTTATTATTTA
26848200 TTTATCTTATTATTTA
1 TTTATCTTATTATTTA
*
26848216 TTTAT-TCATTACTTTA
1 TTTATCTTATTA-TTTA
*
26848232 TTTTATTTTATTATTTA
1 -TTTATCTTATTATTTA
26848249 TT
1 TT
26848251 ACTTTATTTT
Statistics
Matches: 46, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
15 5 0.11
16 27 0.59
17 9 0.20
18 5 0.11
ACGTcount: A:0.24, C:0.06, G:0.00, T:0.70
Consensus pattern (16 bp):
TTTATCTTATTATTTA
Found at i:26848245 original size:25 final size:26
Alignment explanation
Indices: 26848177--26848260 Score: 84
Period size: 25 Copynumber: 3.2 Consensus size: 26
26848167 TTTTATTTTT
26848177 TTTTATTTTTATCTTATT-ATTTA-TTTA
1 TTTTA-TTTTAT-TTATTCA-TTACTTTA
*
26848204 TCTTATTATTTATTTATTCATTACTTTA
1 TTTTA-T-TTTATTTATTCATTACTTTA
*
26848232 TTTTATTTTA-TTATTTATTACTTTA
1 TTTTATTTTATTTATTCATTACTTTA
26848257 TTTT
1 TTTT
26848261 GTTTGGGTGA
Statistics
Matches: 51, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
25 18 0.35
26 4 0.08
27 15 0.29
28 14 0.27
ACGTcount: A:0.23, C:0.06, G:0.00, T:0.71
Consensus pattern (26 bp):
TTTTATTTTATTTATTCATTACTTTA
Found at i:26849555 original size:96 final size:97
Alignment explanation
Indices: 26849389--26849568 Score: 263
Period size: 96 Copynumber: 1.9 Consensus size: 97
26849379 TAAGAATGTG
* * **
26849389 TTGGGCTGAGTAACCAGGGTGAGGTGCTTGGCTGTCATCTCTCTTCGTGTTAAAAGGTTTGATAT
1 TTGGGCTGAGTAACCAGGGTGAGGTACTTGGCTGTCATCTCTCTTCGTGTCAAAAGGTTCAATAT
*
26849454 GTTCTTAAG-AAAAATAAAAATTAGGAGTATA
66 ATTCTTAAGCAAAAATAAAAATTAGGAGTATA
** * *
26849485 TTGGGCTGAGTAACCCTGGTGGGGTACTTGGTTGTCATCTCTCTTCGTGTCAAAAGGTTCAATAT
1 TTGGGCTGAGTAACCAGGGTGAGGTACTTGGCTGTCATCTCTCTTCGTGTCAAAAGGTTCAATAT
*
26849550 ATTCTTAAGCAATAATAAA
66 ATTCTTAAGCAAAAATAAA
26849569 TTAATTAATT
Statistics
Matches: 73, Mismatches: 10, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
96 65 0.89
97 8 0.11
ACGTcount: A:0.28, C:0.14, G:0.24, T:0.34
Consensus pattern (97 bp):
TTGGGCTGAGTAACCAGGGTGAGGTACTTGGCTGTCATCTCTCTTCGTGTCAAAAGGTTCAATAT
ATTCTTAAGCAAAAATAAAAATTAGGAGTATA
Found at i:26850977 original size:17 final size:18
Alignment explanation
Indices: 26850945--26850978 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
26850935 TATTCTCCAC
26850945 TTTAATTTTCGCAATTTA
1 TTTAATTTTCGCAATTTA
26850963 TTTAATTTT-GCAATTT
1 TTTAATTTTCGCAATTT
26850979 CAATTCGACT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.26, C:0.09, G:0.06, T:0.59
Consensus pattern (18 bp):
TTTAATTTTCGCAATTTA
Found at i:26857227 original size:288 final size:286
Alignment explanation
Indices: 26856706--26857255 Score: 649
Period size: 288 Copynumber: 1.9 Consensus size: 286
26856696 ATCTCACCAA
* * * * *
26856706 CCAAAGTTTCCATTATTCTATCCTAAAACAATTAAAAATAATAATAATGGTCACCTCAAAACATA
1 CCAAACTTTCCATTATTCCATCCTAAAACAATTAAAAATAATAATAACGATCACCCCAAAACATA
* * *
26856771 CTTTAGGTCTTCTGGTTGAAAACCAAATACCCTAATTCTTAGGGTTCCCCCCCTTAAAACCATAA
66 CTTTAGGTATTCTGGTTGAAAACCAAATACCATAATTCTTAGGGTTCCCCCCCTTAAAACCACAA
* * * * * *
26856836 ATGACTTCAAAAGCCACCAAAGTTATTTATTGTTGAACTGCTATCTCTACCATGAGCTTTCGATG
131 ATGACTTCAAAAACCACCAAAGGTATCTATTGTCGAACTGCTATCGCTACCATGAGCTTTCGATA
* * * * * *
26856901 CCGCCTCAGTTGACGTCATTGTCGTCAAGTTCTCTCGTTGCCATAGTCAAGTCGCGACCGACCAC
196 CCACCTCAATTGACATCATTATCATCAAGTTCTCTCGTTGCCATAGTCAAGTCGCAACCGACCAC
26856966 CAAACATAAAATTAAATGAATCTAAG
261 CAAACATAAAATTAAATGAATCTAAG
* * * * *
26856992 CCAAACTTTCCATTTTTCCATCCTAAAATAATTAGAAAATAAAATTATAACGATTACCCCAAAGC
1 CCAAACTTTCCATTATTCCATCCTAAAACAATTA-AAAAT--AATAATAACGATCACCCCAAAAC
* **
26857057 ATACTTTAGGTATTCTGGTTGAAAGA-CAAATACCATGATTGC-TAGGGTTTTCCCCC-TAAAAC
63 ATACTTTAGGTATTCTGGTTGAAA-ACCAAATACCATAATT-CTTAGGGTTCCCCCCCTTAAAAC
* * * * *
26857119 CACAAATGACTTGAAAAACGACTAAAGGTATCTATTGTCGAACTGTTATCGCTACCATGGGCTTT
126 CACAAATGACTTCAAAAACCACCAAAGGTATCTATTGTCGAACTGCTATCGCTACCATGAGCTTT
* * ** * * * *
26857184 CGCTATCACCTCAATTGACATTGTTATCATCAA-TTCATCTCGTTGCGATAGTCAGGTTGCAATC
191 CGATACCACCTCAATTGACATCATTATCATCAAGTTC-TCTCGTTGCCATAGTCAAGTCGCAACC
26857248 GACCACCA
255 GACCACCA
26857256 TTGAGCACCG
Statistics
Matches: 217, Mismatches: 41, Indels: 10
0.81 0.15 0.04
Matches are distributed among these distances:
286 30 0.14
287 8 0.04
288 113 0.52
289 64 0.29
290 2 0.01
ACGTcount: A:0.33, C:0.24, G:0.13, T:0.30
Consensus pattern (286 bp):
CCAAACTTTCCATTATTCCATCCTAAAACAATTAAAAATAATAATAACGATCACCCCAAAACATA
CTTTAGGTATTCTGGTTGAAAACCAAATACCATAATTCTTAGGGTTCCCCCCCTTAAAACCACAA
ATGACTTCAAAAACCACCAAAGGTATCTATTGTCGAACTGCTATCGCTACCATGAGCTTTCGATA
CCACCTCAATTGACATCATTATCATCAAGTTCTCTCGTTGCCATAGTCAAGTCGCAACCGACCAC
CAAACATAAAATTAAATGAATCTAAG
Found at i:26860458 original size:12 final size:12
Alignment explanation
Indices: 26860441--26860468 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
26860431 AGTGTGTTAT
26860441 GTCTGAATAACA
1 GTCTGAATAACA
26860453 GTCTGAATAACA
1 GTCTGAATAACA
26860465 GTCT
1 GTCT
26860469 CACAAAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.29
Consensus pattern (12 bp):
GTCTGAATAACA
Found at i:26865551 original size:28 final size:28
Alignment explanation
Indices: 26865511--26865610 Score: 114
Period size: 28 Copynumber: 3.4 Consensus size: 28
26865501 TAAGCCCCCC
26865511 AAAAAAACCTAACCCAAAAAAAAAAAAA
1 AAAAAAACCTAACCCAAAAAAAAAAAAA
26865539 AAAAAAACCTAACCCAAAAAAAAAAAGAAGAAAA
1 AAAAAAACCTAACCC----AAAAAAA-AA-AAAA
*
26865573 AAGAAAAACCTAA-CC-AAAAAAAAATAA
1 AA-AAAAACCTAACCCAAAAAAAAAAAAA
26865600 AAAAAAACCTA
1 AAAAAAACCTA
26865611 GCCACCTAAC
Statistics
Matches: 64, Mismatches: 1, Indels: 16
0.79 0.01 0.20
Matches are distributed among these distances:
26 9 0.14
27 5 0.08
28 17 0.27
29 6 0.09
32 7 0.11
33 2 0.03
34 8 0.12
35 10 0.16
ACGTcount: A:0.76, C:0.16, G:0.03, T:0.05
Consensus pattern (28 bp):
AAAAAAACCTAACCCAAAAAAAAAAAAA
Found at i:26865580 original size:35 final size:31
Alignment explanation
Indices: 26865511--26865606 Score: 117
Period size: 34 Copynumber: 3.1 Consensus size: 31
26865501 TAAGCCCCCC
*
26865511 AAAAAAACCTAACC---CAAAAAAAAAAAAA
1 AAAAAAACCTAACCAAAAAAAAAAAAAAAAA
26865539 AAAAAAACCTAACCCAAAAAAAAAAAGAAGAAAA
1 AAAAAAACCTAA-CCAAAAAAAAAAA-AA-AAAA
*
26865573 AAGAAAAACCTAACCAAAAAAAAATAAAAAAA
1 AA-AAAAACCTAACCAAAAAAAAAAAAAAAAA
26865605 AA
1 AA
26865607 CCTAGCCACC
Statistics
Matches: 59, Mismatches: 2, Indels: 10
0.83 0.03 0.14
Matches are distributed among these distances:
28 12 0.20
29 2 0.03
32 13 0.22
33 4 0.07
34 18 0.31
35 10 0.17
ACGTcount: A:0.78, C:0.15, G:0.03, T:0.04
Consensus pattern (31 bp):
AAAAAAACCTAACCAAAAAAAAAAAAAAAAA
Found at i:26865841 original size:18 final size:17
Alignment explanation
Indices: 26865801--26865839 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
26865791 CCTAAAGGTG
*
26865801 ATTTTATCTTCTTTATT
1 ATTTTATCTTATTTATT
26865818 ATTTTACTCTTATTT-TT
1 ATTTTA-TCTTATTTATT
26865835 ATTTT
1 ATTTT
26865840 TATTTTTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 13 0.65
18 7 0.35
ACGTcount: A:0.18, C:0.10, G:0.00, T:0.72
Consensus pattern (17 bp):
ATTTTATCTTATTTATT
Found at i:26866122 original size:29 final size:29
Alignment explanation
Indices: 26866066--26866122 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
26866056 TCTCTTCTTT
* *
26866066 TTTCATTTATTTTTCGTATTTACCTTAGA
1 TTTCATTTATTTTGCGTATTTAACTTAGA
*
26866095 TTTCATATTATTTTGC-TATTTAATTTAG
1 TTTCAT-TTATTTTGCGTATTTAACTTAG
26866123 CTTTAAATAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 16 0.67
30 8 0.33
ACGTcount: A:0.23, C:0.11, G:0.07, T:0.60
Consensus pattern (29 bp):
TTTCATTTATTTTGCGTATTTAACTTAGA
Found at i:26866382 original size:11 final size:11
Alignment explanation
Indices: 26866364--26866393 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
26866354 GTGTATATTG
26866364 TATATATTATA
1 TATATATTATA
*
26866375 TTTATATTATA
1 TATATATTATA
26866386 TATATATT
1 TATATATT
26866394 CTTAATGTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (11 bp):
TATATATTATA
Found at i:26870606 original size:12 final size:12
Alignment explanation
Indices: 26870589--26870624 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
26870579 AACATTTTGA
26870589 CATTCATGCATT
1 CATTCATGCATT
26870601 CATTCATGCATT
1 CATTCATGCATT
*
26870613 CATTCATACATT
1 CATTCATGCATT
26870625 GCATATCCCA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.28, C:0.25, G:0.06, T:0.42
Consensus pattern (12 bp):
CATTCATGCATT
Found at i:26879263 original size:73 final size:73
Alignment explanation
Indices: 26879082--26879802 Score: 578
Period size: 73 Copynumber: 9.5 Consensus size: 73
26879072 TTTGTTTTTC
* * *
26879082 AAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCT
*
26879147 GTTTT--T
66 GTTTTCAA
** *
26879153 AATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCT
*
26879218 GTTGTCAA
66 GTTTTCAA
* * * *
26879226 AAAATCAACTCGTATTGCGAGCGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--ACACGCTGAGGTATTTTCAATTT
26879291 C-GTTTTCAA
64 CTGTTTTCAA
* * *
26879300 TTTCTGTTTCAAAA--AAATCAACTCATAT-TGAGAGGTGAGTTGAGCCT--GGCGCACG-TGA-
1 ----------AAAATCAACTC-A-T-AT-TGCGAGAGGTGAGTTGAGCCTCAGG-ACACGCTGAG
26879358 GTATTTTCAATTTCTG-TTTCAA
51 GTATTTTCAATTTCTGTTTTCAA
* *
26879380 AAAATCAACTCGTATTGCGAGAGAGCGAGTTGAGCCTCAGGACACGC-GAGGTATTTTC-ATTTC
1 AAAATCAACTCATATTGCGAGAG-GTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTT-
26879443 CT-TTTTCAA
64 CTGTTTTCAA
**** * * * *
26879452 TTTCTGCTTTCAAAAAATCAACTCATAT-TGTGAGAGGTGAGTTGAGCCTCAGGATACG-TGAGG
1 -----AAAATC---AACTC-A-T-AT-TGCGAGA--GGTGAGTTGAGCCTCAGGACACGCTGAGG
*
26879515 TAATTTTCAATTTCTGTTGTCAAA
52 T-ATTTTCAATTTCTGTTTTC-AA
* * *
26879539 AAAATCAACTCATATTGCGAGA-ATGAGTTGAGCCTCA-GACATGCTGAGGTATTTTCAATTTTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCT
26879602 GTCTTTCAA
66 GT-TTTCAA
* *
26879611 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCT
26879676 GTTTTCAA
66 GTTTTCAA
* * ** * *
26879684 AAATTCAACTCATATTGCGAAAAATGAGTTGAGCCTTCAAGACACGTTGAGGTATTTTCAATTTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC-TCAGGACACGCTGAGGTATTTTCAATTTC
26879749 TGTTTTCAAAAAAAA
65 TGTTTTC------AA
* *
26879764 AAAATCAACTCATATTGTGAGAGGTGAGTTGAGCTTCAG
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
26879803 ATCACACAGT
Statistics
Matches: 519, Mismatches: 71, Indels: 112
0.74 0.10 0.16
Matches are distributed among these distances:
68 1 0.00
69 7 0.01
70 17 0.03
71 73 0.14
72 64 0.12
73 108 0.21
74 64 0.12
75 23 0.04
76 5 0.01
77 3 0.01
78 1 0.00
79 7 0.01
80 55 0.11
81 3 0.01
82 12 0.02
83 7 0.01
84 31 0.06
85 27 0.05
86 9 0.02
87 2 0.00
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.33
Consensus pattern (73 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCT
GTTTTCAA
Found at i:26879379 original size:80 final size:85
Alignment explanation
Indices: 26879207--26879376 Score: 217
Period size: 87 Copynumber: 2.0 Consensus size: 85
26879197 GCTGAGGTAA
* *
26879207 TTTCAATTTCTGTTGTCAAAAAATCAACTCGTATTGCGAGCGGCGAGTTGAGCCTCAGGTCACAC
1 TTTCAATTTCTGTTGTCAAAAAATCAACTCATATT-CGAGAGGCGAGTTGAGCCT-AGGTCACAC
26879272 GCCGAGGTATTTTCAATTTCGT
64 GCCGAGGTATTTTCAATTTCGT
* *
26879294 TTTCAATTTCTGTT-TCAAAAAAATCAACTCATATT-GAGAGGTGAGTTGAGCCT-GG-CGCACG
1 TTTCAATTTCTGTTGTC-AAAAAATCAACTCATATTCGAGAGGCGAGTTGAGCCTAGGTCACACG
*
26879355 -TGA-GTATTTTCAATTTCTGT
65 CCGAGGTATTTTCAATTTC-GT
26879375 TT
1 TT
26879377 CAAAAAATCA
Statistics
Matches: 76, Mismatches: 5, Indels: 10
0.84 0.05 0.11
Matches are distributed among these distances:
80 14 0.18
81 6 0.08
82 5 0.07
83 2 0.03
85 16 0.21
86 2 0.03
87 31 0.41
ACGTcount: A:0.25, C:0.19, G:0.21, T:0.35
Consensus pattern (85 bp):
TTTCAATTTCTGTTGTCAAAAAATCAACTCATATTCGAGAGGCGAGTTGAGCCTAGGTCACACGC
CGAGGTATTTTCAATTTCGT
Found at i:26879521 original size:85 final size:85
Alignment explanation
Indices: 26879361--26879683 Score: 274
Period size: 74 Copynumber: 4.1 Consensus size: 85
26879351 CACGTGAGTA
*
26879361 TTTTCAATTTCTGTTTCAAAAAATCAACTCGTATTGCGAGAGAGCGAGTTGAGCCTCAGGACACG
1 TTTTCAATTTCTGTTTCAAAAAATCAACTCATATTGCGAGAGAGCGAGTTGAGCCTCAGGACACG
26879426 CGAGGTATTTTC-ATTTCCT
66 CGAGGTATTTTCAATTTCCT
* * *
26879445 TTTTCAATTTCTGCTTTCAAAAAATCAACTCATATTGTGAGAG-GTGAGTTGAGCCTCAGGATAC
1 TTTTCAATTTCTG-TTTCAAAAAATCAACTCATATTGCGAGAGAGCGAGTTGAGCCTCAGGACAC
*
26879509 GTGAGGTAATTTTCAA------
65 GCGAGGT-ATTTTCAATTTCCT
* * *
26879525 -TTTC--TGT-TG--TCAAAAAAATCAACTCATATTGCGAGA-A-TGAGTTGAGCCTCA-GACAT
1 TTTTCAATTTCTGTTTC-AAAAAATCAACTCATATTGCGAGAGAGCGAGTTGAGCCTCAGGACAC
26879581 GCTGAGGTATTTTCAA------
65 GC-GAGGTATTTTCAATTTCCT
* * *
26879597 TTTT---TGTC--TTTCAAAAAATCAACTCATATTGCGAGAG-GTGAGTTGAGCCTCGGGACACG
1 TTTTCAATTTCTGTTTCAAAAAATCAACTCATATTGCGAGAGAGCGAGTTGAGCCTCAGGACACG
*
26879656 CTGAGGTAATTTCAATTT-CT
66 C-GAGGTATTTTCAATTTCCT
26879676 GTTTTCAA
1 -TTTTCAA
26879684 AAATTCAACT
Statistics
Matches: 204, Mismatches: 13, Indels: 45
0.78 0.05 0.17
Matches are distributed among these distances:
72 39 0.19
73 39 0.19
74 42 0.21
76 2 0.01
77 2 0.01
79 4 0.02
80 4 0.02
84 38 0.19
85 33 0.16
86 1 0.00
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.34
Consensus pattern (85 bp):
TTTTCAATTTCTGTTTCAAAAAATCAACTCATATTGCGAGAGAGCGAGTTGAGCCTCAGGACACG
CGAGGTATTTTCAATTTCCT
Found at i:26880595 original size:31 final size:31
Alignment explanation
Indices: 26880557--26880646 Score: 139
Period size: 31 Copynumber: 3.0 Consensus size: 31
26880547 CCCCCCTAAA
26880557 AAAAACCTAACCCAAAAAAAAAAAGAAAAAG
1 AAAAACCTAACCCAAAAAAAAAAAGAAAAAG
*
26880588 AAAAACCTAACCCAAAAAAAAGAAG-AAAAG
1 AAAAACCTAACCCAAAAAAAAAAAGAAAAAG
* *
26880618 -AAAACCTAACCAAAAAAAAAAAATAAAAA
1 AAAAACCTAACCCAAAAAAAAAAAGAAAAA
26880647 ACCTAGCCAC
Statistics
Matches: 54, Mismatches: 4, Indels: 3
0.89 0.07 0.05
Matches are distributed among these distances:
29 21 0.39
30 9 0.17
31 24 0.44
ACGTcount: A:0.74, C:0.16, G:0.06, T:0.04
Consensus pattern (31 bp):
AAAAACCTAACCCAAAAAAAAAAAGAAAAAG
Found at i:26880882 original size:18 final size:17
Alignment explanation
Indices: 26880842--26880880 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
26880832 CCTAAAGGTG
*
26880842 ATTTTATCTTCTTTATT
1 ATTTTATCTTATTTATT
26880859 ATTTTACTCTTATTT-TT
1 ATTTTA-TCTTATTTATT
26880876 ATTTT
1 ATTTT
26880881 TATTTTTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 13 0.65
18 7 0.35
ACGTcount: A:0.18, C:0.10, G:0.00, T:0.72
Consensus pattern (17 bp):
ATTTTATCTTATTTATT
Found at i:26881162 original size:29 final size:28
Alignment explanation
Indices: 26881107--26881162 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 28
26881097 TCTCTTCTTT
*
26881107 TTTCATTTATTTTCGTATTTACCTTAGA
1 TTTCATTTATTTTCGTATTTAACTTAGA
*
26881135 TTTCATATTATTTT-GCTATTTAATTTAG
1 TTTCAT-TTATTTTCG-TATTTAACTTAG
26881163 CTTTAAATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 7 0.29
29 17 0.71
ACGTcount: A:0.23, C:0.11, G:0.07, T:0.59
Consensus pattern (28 bp):
TTTCATTTATTTTCGTATTTAACTTAGA
Found at i:26881421 original size:11 final size:11
Alignment explanation
Indices: 26881403--26881432 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
26881393 GTGTATATTG
26881403 TATATATTATA
1 TATATATTATA
*
26881414 TTTATATTATA
1 TATATATTATA
26881425 TATATATT
1 TATATATT
26881433 CTTAATGTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (11 bp):
TATATATTATA
Found at i:26881934 original size:2 final size:2
Alignment explanation
Indices: 26881927--26881959 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
26881917 ATATGTCATG
*
26881927 TA TA TA TA TA TA TA TA TA TA TA TA TA TG TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
26881960 GTATGTTTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (2 bp):
TA
Found at i:26888063 original size:27 final size:27
Alignment explanation
Indices: 26888021--26888153 Score: 97
Period size: 27 Copynumber: 4.9 Consensus size: 27
26888011 CTACTATCCT
* *
26888021 GGTGGACTATCTCATGTTTAGTGTTTC
1 GGTGGACTATCACATGTTTAGTGTCTC
*
26888048 GGTGGACTATCACATGTTTATTGTCTC
1 GGTGGACTATCACATGTTTAGTGTCTC
* * * * * * *
26888075 AGTGGACTATCCCTTATTTATTATCTT
1 GGTGGACTATCACATGTTTAGTGTCTC
* * *
26888102 GGCGGACCATCACATGTTTAATGTCAT-
1 GGTGGACTATCACATGTTTAGTGTC-TC
* * * *
26888129 GGCGCACTATCCCATGTTTATTGTC
1 GGTGGACTATCACATGTTTAGTGTC
26888154 CTGGCAGTCT
Statistics
Matches: 84, Mismatches: 21, Indels: 2
0.79 0.20 0.02
Matches are distributed among these distances:
27 83 0.99
28 1 0.01
ACGTcount: A:0.20, C:0.20, G:0.20, T:0.40
Consensus pattern (27 bp):
GGTGGACTATCACATGTTTAGTGTCTC
Found at i:26888882 original size:87 final size:84
Alignment explanation
Indices: 26888735--26888907 Score: 211
Period size: 87 Copynumber: 2.0 Consensus size: 84
26888725 CCGCCAAATC
* *
26888735 TTACTCCATCTATCCCATCAATAATTCTCTTCGTACTCCATTGTTACAAACATACAATACATGTA
1 TTACTCCATCTATCCCATCAATAATTCCCTTCGTACTCCACTGTTACAAACATACAATACATGTA
*
26888800 TTTCCTAGATATATATTATCA
66 TTT-AT-GATATATATTATCA
* * * * * ** *
26888821 TTACTCCATTTATTCCATCAATATGTTCCCTTTGTACTTCACTGTTGTAAACATGCAATACATGT
1 TTACTCCATCTATCCCATCAATA-ATTCCCTTCGTACTCCACTGTTACAAACATACAATACATGT
*
26888886 ATTTATTATATATATTATCA
65 ATTTATGATATATATTATCA
26888906 TT
1 TT
26888908 GAGTATATTA
Statistics
Matches: 74, Mismatches: 12, Indels: 3
0.83 0.13 0.03
Matches are distributed among these distances:
85 15 0.20
86 22 0.30
87 37 0.50
ACGTcount: A:0.31, C:0.21, G:0.06, T:0.42
Consensus pattern (84 bp):
TTACTCCATCTATCCCATCAATAATTCCCTTCGTACTCCACTGTTACAAACATACAATACATGTA
TTTATGATATATATTATCA
Found at i:26897841 original size:22 final size:22
Alignment explanation
Indices: 26897813--26897861 Score: 89
Period size: 22 Copynumber: 2.2 Consensus size: 22
26897803 TTAATTACTT
26897813 GTAAGGCGTTAAATCTAATAGA
1 GTAAGGCGTTAAATCTAATAGA
*
26897835 GTAAGGCGTTAAGTCTAATAGA
1 GTAAGGCGTTAAATCTAATAGA
26897857 GTAAG
1 GTAAG
26897862 AATATCTTGT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.39, C:0.08, G:0.27, T:0.27
Consensus pattern (22 bp):
GTAAGGCGTTAAATCTAATAGA
Found at i:26899444 original size:14 final size:16
Alignment explanation
Indices: 26899421--26899452 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
26899411 AATTGGTTTT
26899421 AAGTTGTTTA-AATTA
1 AAGTTGTTTAGAATTA
26899436 AAGTT-TTTAGAATTA
1 AAGTTGTTTAGAATTA
26899451 AA
1 AA
26899453 TCAATAGTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 4 0.25
15 12 0.75
ACGTcount: A:0.44, C:0.00, G:0.12, T:0.44
Consensus pattern (16 bp):
AAGTTGTTTAGAATTA
Found at i:26900596 original size:17 final size:17
Alignment explanation
Indices: 26900576--26900628 Score: 51
Period size: 17 Copynumber: 3.4 Consensus size: 17
26900566 TAGTACATAA
26900576 AAAATACTAAAACCATT
1 AAAATACTAAAACCATT
***
26900593 -AAA-A-T-AAATGTTT
1 AAAATACTAAAACCATT
26900606 AAAATACTAAAACCATT
1 AAAATACTAAAACCATT
26900623 AAAATA
1 AAAATA
26900629 AATGTTTACC
Statistics
Matches: 26, Mismatches: 6, Indels: 8
0.65 0.15 0.20
Matches are distributed among these distances:
13 5 0.19
14 4 0.15
15 2 0.08
16 4 0.15
17 11 0.42
ACGTcount: A:0.60, C:0.11, G:0.02, T:0.26
Consensus pattern (17 bp):
AAAATACTAAAACCATT
Found at i:26900611 original size:30 final size:30
Alignment explanation
Indices: 26900576--26900636 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
26900566 TAGTACATAA
26900576 AAAATACTAAAACCATTAAAATAAATGTTT
1 AAAATACTAAAACCATTAAAATAAATGTTT
26900606 AAAATACTAAAACCATTAAAATAAATGTTT
1 AAAATACTAAAACCATTAAAATAAATGTTT
26900636 A
1 A
26900637 CCAATAAATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.57, C:0.10, G:0.03, T:0.30
Consensus pattern (30 bp):
AAAATACTAAAACCATTAAAATAAATGTTT
Found at i:26901712 original size:8 final size:8
Alignment explanation
Indices: 26901699--26901725 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
26901689 AGTGCTGAAG
26901699 AATAAACA
1 AATAAACA
26901707 AATAAACA
1 AATAAACA
26901715 AATAAACA
1 AATAAACA
26901723 AAT
1 AAT
26901726 TCAAAGTGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.74, C:0.11, G:0.00, T:0.15
Consensus pattern (8 bp):
AATAAACA
Found at i:26901771 original size:2 final size:2
Alignment explanation
Indices: 26901764--26901797 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
26901754 ATTACAAGCA
26901764 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
26901798 TTACAAATCA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:26902365 original size:17 final size:17
Alignment explanation
Indices: 26902343--26902376 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
26902333 AAATCAGTTT
26902343 TTTATATATTTTTTAAA
1 TTTATATATTTTTTAAA
*
26902360 TTTATATTTTTTTTAAA
1 TTTATATATTTTTTAAA
26902377 ATATAATTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (17 bp):
TTTATATATTTTTTAAA
Found at i:26907220 original size:4 final size:4
Alignment explanation
Indices: 26907183--26907252 Score: 54
Period size: 4 Copynumber: 17.8 Consensus size: 4
26907173 CATTATTCCT
* * * * * *
26907183 TTTA TTTTA TTCA TTTA TTTG TTCA TTTA CTTA TTTA TATA -TTA TTCA
1 TTTA -TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
*
26907231 TTCA TTTA TTTA TTTA -TTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTT
26907253 TAATCCTTGT
Statistics
Matches: 51, Mismatches: 12, Indels: 5
0.75 0.18 0.07
Matches are distributed among these distances:
3 5 0.10
4 42 0.82
5 4 0.08
ACGTcount: A:0.24, C:0.07, G:0.01, T:0.67
Consensus pattern (4 bp):
TTTA
Found at i:26907239 original size:23 final size:23
Alignment explanation
Indices: 26907204--26907251 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
26907194 CATTTATTTG
*
26907204 TTCATTTACTTATTTATATATTA
1 TTCATTCACTTATTTATATATTA
* *
26907227 TTCATTCATTTATTTATTTATTA
1 TTCATTCACTTATTTATATATTA
26907250 TT
1 TT
26907252 TTAATCCTTG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.27, C:0.08, G:0.00, T:0.65
Consensus pattern (23 bp):
TTCATTCACTTATTTATATATTA
Found at i:26913541 original size:44 final size:44
Alignment explanation
Indices: 26913487--26914223 Score: 559
Period size: 44 Copynumber: 16.5 Consensus size: 44
26913477 ATAAAATTTC
* *
26913487 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAAATTAAAGCCACAA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACAA
* *
26913531 ATCCTATCTCCCTGAAGTTGCAGTGGAGCAGA-TAGAAGATAGCAA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTA-AAGCTA-CAA
* * * *
26913576 ATCTTATCTCTCTGAAGTTGCAGTAGAGAAGATTAAAGCTATAA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACAA
* * * * * *
26913620 ACCTTATCTCCCTAAAGTTGCAGTGGGGCAGGTTGAAGTTACAA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACAA
* * * * * *
26913664 GTCTTATCTCCCTGAAGTTGCAGTAGAGCAAACTGAAA-ATAGCGA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TTAAAGCTA-CAA
* * * * *
26913709 ATCTTATTTCCCTAAAGTTGCAGTGGAGCAGATTAAAGTTATAG
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACAA
* * * ** * ** *
26913753 ATTTTATCTTCCTAAAGTAACAGTGGAGTAGATCGAAGATAGCAA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTA-CAA
* * * *
26913798 ATCTTATCTCTCTAAAGTTGCAGTAGAGCAGATTAAAGCTATAA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACAA
** * * * **
26913842 CCCTTATTTCCCTGAAGTTGCAGTGGAGTAGGTTAAAAATAAACAA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCT--ACAA
* * *
26913888 ATTTTATCTCCCTGAAGTTGCTGTGGAACAGATTGAAGATAAGCTACAA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT----A-AAGCTACAA
* * *
26913937 ATCTTATCTCCTTGAAGTTGTAGTGGAGCAGATTAAAGCTGCAA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACAA
* * * **
26913981 ACCTTATCTCCCTGATA-TTGCAGTGGAGTAGGTTAAAAATAGCAA
1 ATCTTATCTCCCTGA-AGTTGCAGTGGAGCAGATTAAAGCTA-CAA
* *** ** *
26914026 ATATTATCTTTTTGAAGTTGCAGCAGAGCAGATTAAAGCTACAC
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACAA
* *
26914070 A-CTTTATCTCCCTGAGGTTGCAGTGGAGCAGATTGAAGAC-ACAA
1 ATC-TTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG-CTACAA
* * * *
26914114 ATCTCATCTCCCTGAAGTTACAGCGGAGCATG-TTGAAGCTACAA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCA-GATTAAAGCTACAA
* * * *** ** *
26914158 GTCTTATCTCTCTGAAGTTGTAGTGGAATGGATCGAAGCTATAA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACAA
* *
26914202 GTCTTATCTCTCTGAAGTTGCA
1 ATCTTATCTCCCTGAAGTTGCA
26914224 AAAGAGTGGA
Statistics
Matches: 535, Mismatches: 135, Indels: 46
0.75 0.19 0.06
Matches are distributed among these distances:
43 4 0.01
44 325 0.61
45 138 0.26
46 31 0.06
49 33 0.06
50 1 0.00
51 3 0.01
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (44 bp):
ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACAA
Found at i:26913638 original size:89 final size:88
Alignment explanation
Indices: 26913487--26914223 Score: 466
Period size: 89 Copynumber: 8.2 Consensus size: 88
26913477 ATAAAATTTC
* *
26913487 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAA-ATTAAAGCCACAAATCC-TATCTCCCTGAAGTT
1 ATCTTATCTCCCTGAAGTTGCAGTGGAG-AAGATTAAAGCTACAAA-CCTTATCTCCCTAAAGTT
26913550 GCAGTGGAGCAGATAGAAGATAGCAA
64 GCAGTGGAGCAGATAGAAGATA-CAA
* * *
26913576 ATCTTATCTCTCTGAAGTTGCAGTAGAGAAGATTAAAGCTATAAACCTTATCTCCCTAAAGTTGC
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGAAGATTAAAGCTACAAACCTTATCTCCCTAAAGTTGC
* * * *
26913641 AGTGGGGCAGGTTGAAGTTACAA
66 AGTGGAGCAGATAGAAGATACAA
* * * * * * *
26913664 GTCTTATCTCCCTGAAGTTGCAGTAGAGCAA-ACTGAAA-ATAGCGAATCTTATTTCCCTAAAGT
1 ATCTTATCTCCCTGAAGTTGCAGTGGAG-AAGA-TTAAAGCTA-CAAACCTTATCTCCCTAAAGT
* * *
26913727 TGCAGTGGAGCAGATTA-AAGTTATAG
63 TGCAGTGGAGCAGA-TAGAAGATACAA
* * * ** * ** * * *
26913753 ATTTTATCTTCCTAAAGTAACAGTGGAGTAGATCGAAGATAGCAAATCTTATCTCTCTAAAGTTG
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGAAGATTAAAGCTA-CAAACCTTATCTCCCTAAAGTTG
* * *
26913818 CAGTAGAGCAGATTA-AAGCTATAA
65 CAGTGGAGCAGA-TAGAAGATACAA
** * * * ** ** *
26913842 CCCTTATTTCCCTGAAGTTGCAGTGGAGTAGGTTAAAAATAAACAAATTTTATCTCCCTGAAGTT
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGAAGATTAAAGCT--ACAAACCTTATCTCCCTAAAGTT
* * *
26913907 GCTGTGGAACAGATTGAAGATAAGCTACAA
64 GCAGTGGAGCAGA-T--AG--AAGATACAA
* * * * *
26913937 ATCTTATCTCCTTGAAGTTGTAGTGGAGCAGATTAAAGCTGCAAACCTTATCTCCCTGATA-TTG
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGAAGATTAAAGCTACAAACCTTATCTCCCT-AAAGTTG
* * *
26914001 CAGTGGAGTAGGTTA-AAAATAGCAA
65 CAGTGGAGCA-GATAGAAGATA-CAA
* *** ** * * * * *
26914026 ATATTATCTTTTTGAAGTTGCAGCAGAGCAGATTAAAGCTACACACTTTATCTCCCTGAGGTTGC
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGAAGATTAAAGCTACAAACCTTATCTCCCTAAAGTTGC
* *
26914091 AGTGGAGCAGATTGAAGACACAA
66 AGTGGAGCAGATAGAAGATACAA
* * * * * ** * *
26914114 ATCTCATCTCCCTGAAGTTACAGCGGAGCATG-TTGAAGCTACAAGTCTTATCTCTCTGAAGTTG
1 ATCTTATCTCCCTGAAGTTGCAGTGGAG-AAGATTAAAGCTACAAACCTTATCTCCCTAAAGTTG
* *** * * *
26914178 TAGTGGAATGGATCGAAGCTATAA
65 CAGTGGAGCAGATAGAAGATACAA
* *
26914202 GTCTTATCTCTCTGAAGTTGCA
1 ATCTTATCTCCCTGAAGTTGCA
26914224 AAAGAGTGGA
Statistics
Matches: 505, Mismatches: 122, Indels: 43
0.75 0.18 0.06
Matches are distributed among these distances:
88 129 0.26
89 275 0.54
90 32 0.06
91 2 0.00
92 1 0.00
93 25 0.05
94 2 0.00
95 39 0.08
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (88 bp):
ATCTTATCTCCCTGAAGTTGCAGTGGAGAAGATTAAAGCTACAAACCTTATCTCCCTAAAGTTGC
AGTGGAGCAGATAGAAGATACAA
Found at i:26913727 original size:133 final size:133
Alignment explanation
Indices: 26913489--26913827 Score: 383
Period size: 133 Copynumber: 2.5 Consensus size: 133
26913479 AAAATTTCAT
* * * ** *
26913489 CTTATCTCCCTGAAGTTGCAGTGGAGCAAATTAAAGCCACAAATCCTATCTCCCTGAAGTTGCAG
1 CTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGATACAAATCTTATCTCCCTGAAGTTGCAG
* * * * *
26913554 TGGAGCAGATAGAAGATAGCAAATCTTATCTCTCTGAAGTTGCAGTAGAGAAGATTAAAGCTATA
66 TAGAGCAAATAGAAAATAGCAAATCTTATCTCCCTAAAGTTGCAGTAGAGAAGATTAAAGCTATA
26913619 AAC
131 AAC
* * * *
26913622 CTTATCTCCCTAAAGTTGCAGTGGGGCAGGTTGAAGTTACAAGTCTTATCTCCCTGAAGTTGCAG
1 CTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGATACAAATCTTATCTCCCTGAAGTTGCAG
* * * * *
26913687 TAGAGCAAACT-GAAAATAGCGAATCTTATTTCCCTAAAGTTGCAGTGGAGCAGATTAAAGTTAT
66 TAGAGCAAA-TAGAAAATAGCAAATCTTATCTCCCTAAAGTTGCAGTAGAGAAGATTAAAGCTAT
* *
26913751 AGAT
130 AAAC
* * ** * * * *
26913755 TTTATCTTCCTAAAGTAACAGTGGAGTAGATCGAAGATAGCAAATCTTATCTCTCTAAAGTTGCA
1 CTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGATA-CAAATCTTATCTCCCTGAAGTTGCA
26913820 GTAGAGCA
65 GTAGAGCA
26913828 GATTAAAGCT
Statistics
Matches: 171, Mismatches: 33, Indels: 3
0.83 0.16 0.01
Matches are distributed among these distances:
133 140 0.82
134 31 0.18
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.28
Consensus pattern (133 bp):
CTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGATACAAATCTTATCTCCCTGAAGTTGCAG
TAGAGCAAATAGAAAATAGCAAATCTTATCTCCCTAAAGTTGCAGTAGAGAAGATTAAAGCTATA
AAC
Found at i:26914126 original size:133 final size:136
Alignment explanation
Indices: 26913795--26914141 Score: 364
Period size: 139 Copynumber: 2.6 Consensus size: 136
26913785 TCGAAGATAG
* * * * * * *
26913795 CAAATCTTATCTCTCTAAAGTTGCAGTAGAGCAGATTAAAGCTATAACCCTTATTTCCCTGAAGT
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACAAACCTCATCTCCCTGAAGT
* * **
26913860 TGCAGTGGAGTAGGTTAAAAATAAACAAATTTTATCTCCCTGAAGTTGCTGTGGAACAGATTGAA
66 TGCAGTGGAGTAGGTTAAAAATAAACAAATATTATCTCCCTGAAGTTGCAGCAGAACAGATT--A
26913925 GATAAGCTA
129 -ATAAGCTA
* * * *
26913934 CAAATCTTATCTCCTTGAAGTTGTAGTGGAGCAGATTAAAGCTGCAAACCTTATCTCCCTGATA-
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACAAACCTCATCTCCCTGA-AG
* *** *
26913998 TTGCAGTGGAGTAGGTTAAAAAT-AGCAAATATTATCTTTTTGAAGTTGCAGCAGAGCAGATT-A
65 TTGCAGTGGAGTAGGTTAAAAATAAACAAATATTATCTCCCTGAAGTTGCAGCAGAACAGATTAA
26914061 -AAGCTA
130 TAAGCTA
* * * *
26914067 CACA-CTTTATCTCCCTGAGGTTGCAGTGGAGCAGATTGAAGAC-ACAAATCTCATCTCCCTGAA
1 CAAATC-TTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG-CTACAAACCTCATCTCCCTGAA
* *
26914130 GTTACAGCGGAG
64 GTTGCAGTGGAG
26914142 CATGTTGAAG
Statistics
Matches: 176, Mismatches: 28, Indels: 14
0.81 0.13 0.06
Matches are distributed among these distances:
132 2 0.01
133 65 0.37
134 2 0.01
138 30 0.17
139 76 0.43
140 1 0.01
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.29
Consensus pattern (136 bp):
CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACAAACCTCATCTCCCTGAAGT
TGCAGTGGAGTAGGTTAAAAATAAACAAATATTATCTCCCTGAAGTTGCAGCAGAACAGATTAAT
AAGCTA
Found at i:26914234 original size:44 final size:44
Alignment explanation
Indices: 26914148--26914245 Score: 124
Period size: 44 Copynumber: 2.2 Consensus size: 44
26914138 GGAGCATGTT
* ***
26914148 GAAGCTACAAGTCTTATCTCTCTGAAGTTGTAGTGGAATGGATC
1 GAAGCTACAAGTCTTATCTCTCTGAAGTTGCAAAAGAATGGATC
* *
26914192 GAAGCTATAAGTCTTATCTCTCTGAAGTTGCAAAAGAGTGGATC
1 GAAGCTACAAGTCTTATCTCTCTGAAGTTGCAAAAGAATGGATC
* *
26914236 AAAGCGACAA
1 GAAGCTACAA
26914246 TTCCTATACC
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.33, C:0.16, G:0.23, T:0.28
Consensus pattern (44 bp):
GAAGCTACAAGTCTTATCTCTCTGAAGTTGCAAAAGAATGGATC
Found at i:26915479 original size:94 final size:94
Alignment explanation
Indices: 26915337--26916313 Score: 985
Period size: 94 Copynumber: 10.4 Consensus size: 94
26915327 CAGTGAAACC
* * * *
26915337 ACAAACCCTATACCCCTGAAGTTGCAGTGGATC-AGATTGAAGT-TACCATAGCGAATCTTATTT
1 ACAAATCCTATACCCCTGAAGTTGCAGTGGGTCGA-ATTGAA-TCTACCATAGCAAATCTTATCT
* *
26915400 CCCTAAAGTTGTAGTGGAGCAGATTAAAGCT
64 CCCTAAAGTTGTAGTGGAGTAGATTGAAGCT
* * * * *
26915431 ACAAATCCTATACCCCTGAAGTTGAAATGGGTCGAATTAAATCCACCATAGTAAATCTTATCTCC
1 ACAAATCCTATACCCCTGAAGTTGCAGTGGGTCGAATTGAATCTACCATAGCAAATCTTATCTCC
* *
26915496 CTGAAGTTGTAGTGGAGCAGATTGAAGCT
66 CTAAAGTTGTAGTGGAGTAGATTGAAGCT
* ** * * * * * * *
26915525 ACAGATTTTATA-CCCTAAAGTTACAATGGGTC-AGATTTAAACTACCATAGCGAATCTTATCTA
1 ACAAATCCTATACCCCTGAAGTTGCAGTGGGTCGA-ATTGAATCTACCATAGCAAATCTTATCTC
* * * *
26915588 CCTGAGGTTGCAGTGCAGTAGA-TGAAGCT
65 CCTAAAGTTGTAGTGGAGTAGATTGAAGCT
* *
26915617 AAAAATCCTATACCCCTGAAGTTGTAGTGGGTCGAATTGAATC-ACCATAGCAAATCTTATCTCC
1 ACAAATCCTATACCCCTGAAGTTGCAGTGGGTCGAATTGAATCTACCATAGCAAATCTTATCTCC
* *
26915681 CTAAAGTTATAGTGGAGCAGA-TGAAGCT
66 CTAAAGTTGTAGTGGAGTAGATTGAAGCT
* **
26915709 GCAAATCCTATACCCCTGAAGTTGCAGTGGGTC-AGATTGAATCTACCATAGTGAATCTTATCTC
1 ACAAATCCTATACCCCTGAAGTTGCAGTGGGTCGA-ATTGAATCTACCATAGCAAATCTTATCTC
* * * * * * *
26915773 TCTAAACTTATGGTGGAGAAGATTAAAGTT
65 CCTAAAGTTGTAGTGGAGTAGATTGAAGCT
* * * * *
26915803 ACAAATCCTATACCCCTGAAGTTGCAGCGGATCGAATTGAAGCTATCATAGCAAATATTATCTCC
1 ACAAATCCTATACCCCTGAAGTTGCAGTGGGTCGAATTGAATCTACCATAGCAAATCTTATCTCC
* * * * *
26915868 CTGAAGTTGCAATAGAGTA-AGGTGAAGCT
66 CTAAAGTTGTAGTGGAGTAGA-TTGAAGCT
* * * *
26915897 ACAAATCCTATACCCTTGAAGTTGCAGTGGGTCGGATTGAATCTACCATAGCGAATCTTATCTCT
1 ACAAATCCTATACCCCTGAAGTTGCAGTGGGTCGAATTGAATCTACCATAGCAAATCTTATCTCC
* * * *
26915962 CTGAAGTTGCAGTGGAGGAGATTTAAGCT
66 CTAAAGTTGTAGTGGAGTAGATTGAAGCT
* * * *
26915991 ACAAATCCTATACCCCTAAAGCTTCGACA---GGTC-AGATTGAATTTAGCATAGCAAATCTTGT
1 ACAAATCCTATACCCCTGAAG-TT-G-CAGTGGGTCGA-ATTGAATCTACCATAGCAAATCTTAT
* *
26916052 CTCCCTAAAGTTGTAGTAGAGTAGATTTAAGCT
62 CTCCCTAAAGTTGTAGTGGAGTAGATTGAAGCT
* * * *
26916085 GCAAATTCTATACCCATGAAGTTGCAGTGGGTCGAATTGAATCTACCATAGCAAACCTTATCTCC
1 ACAAATCCTATACCCCTGAAGTTGCAGTGGGTCGAATTGAATCTACCATAGCAAATCTTATCTCC
* * **
26916150 CTGAAGTTATAGTAAAGTAGATTGAAGCT
66 CTAAAGTTGTAGTGGAGTAGATTGAAGCT
* * * * * *
26916179 ACAAATCCTATATCCTTGAAGTTACAGTGGGT-TAGATTGAATCTACCATAGAAAATATTATCTC
1 ACAAATCCTATACCCCTGAAGTTGCAGTGGGTCGA-ATTGAATCTACCATAGCAAATCTTATCTC
* * *
26916243 CCTAAAGTTGCAATGGAGTA-AGGTGAAGCT
65 CCTAAAGTTGTAGTGGAGTAGA-TTGAAGCT
* * *
26916273 ACAAATCTTATACCCCAGAAGTTGTAGTGGGTCGAATTGAA
1 ACAAATCCTATACCCCTGAAGTTGCAGTGGGTCGAATTGAA
26916314 ACGACAAAAA
Statistics
Matches: 724, Mismatches: 137, Indels: 44
0.80 0.15 0.05
Matches are distributed among these distances:
91 3 0.00
92 96 0.13
93 122 0.17
94 493 0.68
95 7 0.01
96 1 0.00
97 2 0.00
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.29
Consensus pattern (94 bp):
ACAAATCCTATACCCCTGAAGTTGCAGTGGGTCGAATTGAATCTACCATAGCAAATCTTATCTCC
CTAAAGTTGTAGTGGAGTAGATTGAAGCT
Found at i:26915745 original size:43 final size:43
Alignment explanation
Indices: 26915588--26915745 Score: 108
Period size: 43 Copynumber: 3.5 Consensus size: 43
26915578 ATCTTATCTA
* * **
26915588 CCTGAGGTTGCAGTGCAGT-AGATGAAGCTAAAAATCCTATACC
1 CCTGAAGTTGCAGTG-GGTCAGATGAAGCTGCAAATCCTATACC
* * *
26915631 CCTGAAGTTGTAGTGGGTC-GAATTGAATCACCATAGCAAATCTTAT-CTC
1 CCTGAAGTTGCAGTGGGTCAG-A-TG-A--AGC-T-GCAAATCCTATAC-C
* **
26915680 CCTAAAGTTATAGTGGAG-CAGATGAAGCTGCAAATCCTATACC
1 CCTGAAGTTGCAGTGG-GTCAGATGAAGCTGCAAATCCTATACC
26915723 CCTGAAGTTGCAGTGGGTCAGAT
1 CCTGAAGTTGCAGTGGGTCAGAT
26915746 TGAATCTACC
Statistics
Matches: 88, Mismatches: 14, Indels: 26
0.69 0.11 0.20
Matches are distributed among these distances:
42 4 0.05
43 43 0.49
44 4 0.05
45 3 0.03
47 3 0.03
48 4 0.05
49 25 0.28
50 2 0.02
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.26
Consensus pattern (43 bp):
CCTGAAGTTGCAGTGGGTCAGATGAAGCTGCAAATCCTATACC
Found at i:26917849 original size:4 final size:4
Alignment explanation
Indices: 26917840--26917896 Score: 82
Period size: 4 Copynumber: 14.2 Consensus size: 4
26917830 AATCTAACCC
26917840 TTTA TTTA TTGT- TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTGT- TTTA
1 TTTA TTTA TT-TA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT-TA TTTA
26917888 TTTA TTTA T
1 TTTA TTTA T
26917897 ACCTTAAAAT
Statistics
Matches: 49, Mismatches: 0, Indels: 8
0.86 0.00 0.14
Matches are distributed among these distances:
3 2 0.04
4 45 0.92
5 2 0.04
ACGTcount: A:0.21, C:0.00, G:0.04, T:0.75
Consensus pattern (4 bp):
TTTA
Found at i:26917861 original size:16 final size:16
Alignment explanation
Indices: 26917840--26917896 Score: 98
Period size: 16 Copynumber: 3.6 Consensus size: 16
26917830 AATCTAACCC
26917840 TTTATTTATTGTTTTA
1 TTTATTTATTGTTTTA
26917856 TTTATTTATT-TATTTA
1 TTTATTTATTGT-TTTA
26917872 TTTATTTATTGTTTTA
1 TTTATTTATTGTTTTA
26917888 TTTATTTAT
1 TTTATTTAT
26917897 ACCTTAAAAT
Statistics
Matches: 39, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
15 1 0.03
16 37 0.95
17 1 0.03
ACGTcount: A:0.21, C:0.00, G:0.04, T:0.75
Consensus pattern (16 bp):
TTTATTTATTGTTTTA
Found at i:26930765 original size:34 final size:35
Alignment explanation
Indices: 26930651--26930814 Score: 154
Period size: 35 Copynumber: 4.7 Consensus size: 35
26930641 TCCATGGCAA
** * *
26930651 AGTTGTGAAATATAGGTATGGTATCATCCATACTA
1 AGTTGTGAAACGTAGGTATGGTATTATCCATACTG
* * * *
26930686 AGTTGTGAAACATAGGTATAGTATTAACCATAATG
1 AGTTGTGAAACGTAGGTATGGTATTATCCATACTG
26930721 AGTTGTGAAACGTAGGTATGGTATTATCC-TACTG
1 AGTTGTGAAACGTAGGTATGGTATTATCCATACTG
** * **
26930755 AGTTAAGAAACGTAGATATGACATT-TCCCATAGC-G
1 AGTTGTGAAACGTAGGTATGGTATTAT-CCATA-CTG
* *
26930790 AGTTGTAAAATGTAGGTATGGTATT
1 AGTTGTGAAACGTAGGTATGGTATT
26930815 TCAATAAGGA
Statistics
Matches: 104, Mismatches: 22, Indels: 6
0.79 0.17 0.05
Matches are distributed among these distances:
33 1 0.01
34 26 0.25
35 76 0.73
36 1 0.01
ACGTcount: A:0.34, C:0.10, G:0.23, T:0.33
Consensus pattern (35 bp):
AGTTGTGAAACGTAGGTATGGTATTATCCATACTG
Found at i:26934518 original size:5 final size:6
Alignment explanation
Indices: 26934501--26934525 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
26934491 TTACTTTGAC
26934501 TATTTT TATTTT TATTTT TATTTT T
1 TATTTT TATTTT TATTTT TATTTT T
26934526 TTAAATTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TATTTT
Found at i:26940663 original size:21 final size:21
Alignment explanation
Indices: 26940619--26940664 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
26940609 AAAAAAAATG
* *
26940619 GTAGTGGTGAGATTAGTTACT
1 GTAGAGGTGAGATTAGATACT
* *
26940640 GTAGAGGTGAGATTGGATATT
1 GTAGAGGTGAGATTAGATACT
26940661 GTAG
1 GTAG
26940665 CAGCAGTGAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.26, C:0.02, G:0.37, T:0.35
Consensus pattern (21 bp):
GTAGAGGTGAGATTAGATACT
Found at i:26941139 original size:56 final size:55
Alignment explanation
Indices: 26941034--26941142 Score: 182
Period size: 56 Copynumber: 2.0 Consensus size: 55
26941024 TTAGTTATCC
* *
26941034 AAACATCAAATCAATGCAGTAAAAAGGAATATTCTCTCAATATCTCATCTCACTA
1 AAACATCAAATCAATGCAGTAAAAAGAAATATTCTCTCAATATCCCATCTCACTA
*
26941089 AAACATCAAATCAATGCATTAAAAAAGAAATATTCTCTCAATATCCCATCTCAC
1 AAACATCAAATCAATGCAGT-AAAAAGAAATATTCTCTCAATATCCCATCTCAC
26941143 CACGGCTTAT
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
55 19 0.38
56 31 0.62
ACGTcount: A:0.45, C:0.23, G:0.06, T:0.27
Consensus pattern (55 bp):
AAACATCAAATCAATGCAGTAAAAAGAAATATTCTCTCAATATCCCATCTCACTA
Found at i:26941711 original size:28 final size:26
Alignment explanation
Indices: 26941678--26941749 Score: 99
Period size: 28 Copynumber: 2.7 Consensus size: 26
26941668 TAACATTTAA
26941678 TTAAATTTTAAAAATTAAAATTATTT
1 TTAAATTTTAAAAATTAAAATTATTT
** *
26941704 TTAAAAATTAAAATCACTAAAATTATTT
1 TTAAATTTTAAAA--ATTAAAATTATTT
26941732 TTAAATTTTAAAAATTAA
1 TTAAATTTTAAAAATTAA
26941750 TTAAATCCTA
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
26 15 0.39
28 23 0.61
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (26 bp):
TTAAATTTTAAAAATTAAAATTATTT
Found at i:26947385 original size:9 final size:9
Alignment explanation
Indices: 26947373--26947405 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
26947363 GAATTATTCG
26947373 AATCGAGTT
1 AATCGAGTT
26947382 AATCGAGTT
1 AATCGAGTT
*
26947391 AATCGAATT
1 AATCGAGTT
26947400 AATCGA
1 AATCGA
26947406 ATCAACTCGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.39, C:0.12, G:0.18, T:0.30
Consensus pattern (9 bp):
AATCGAGTT
Found at i:26947406 original size:9 final size:9
Alignment explanation
Indices: 26947373--26947418 Score: 56
Period size: 9 Copynumber: 5.0 Consensus size: 9
26947363 GAATTATTCG
*
26947373 AATCGAGTT
1 AATCGAATT
*
26947382 AATCGAGTT
1 AATCGAATT
26947391 AATCGAATT
1 AATCGAATT
*
26947400 AATCGAATC
1 AATCGAATT
26947409 AACTCGAATT
1 AA-TCGAATT
26947419 TTTTTTTCGA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
9 27 0.82
10 6 0.18
ACGTcount: A:0.39, C:0.15, G:0.15, T:0.30
Consensus pattern (9 bp):
AATCGAATT
Found at i:26949529 original size:30 final size:30
Alignment explanation
Indices: 26949495--26949561 Score: 125
Period size: 30 Copynumber: 2.2 Consensus size: 30
26949485 CTATCTATTT
*
26949495 TTAATTTATGCTATTGTACTATTATATTAA
1 TTAATTTATGCTATTATACTATTATATTAA
26949525 TTAATTTATGCTATTATACTATTATATTAA
1 TTAATTTATGCTATTATACTATTATATTAA
26949555 TTAATTT
1 TTAATTT
26949562 TTAATTTAAC
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.34, C:0.06, G:0.04, T:0.55
Consensus pattern (30 bp):
TTAATTTATGCTATTATACTATTATATTAA
Found at i:26952317 original size:213 final size:213
Alignment explanation
Indices: 26951944--26952341 Score: 674
Period size: 213 Copynumber: 1.9 Consensus size: 213
26951934 TGAAGCACAA
*
26951944 GAAGAAAGTTAAACTATTCTATAATGGTTTTTGAACTGATGTGTTATTGTTATTAGTTTGGTTTG
1 GAAGAAACTTAAACTATTCTATAATGGTTTTTGAACTGATGTGTTATTGTTATTAGTTTGGTTTG
* * *
26952009 GTTTGTTATTGTTGTTGGATAATTGAGCTTTTGTTGTGTTCTTTTTTTTTTTGGACTGGTGTAGG
66 GTTTGTTATTGTCGTTGGATAATTGAACTTTTGTTGTGTTCTTTTTTTTTTTGGACTGGTGTAAG
*
26952074 TTTCTATTGTATTTTGGATTTTTGCTTATGTTTTTTTTAATTACAATGTTGTTGTATTGTTTTTG
131 TTTCTATTGTATTTTGGATTTTTGCTTATGTTTTTTTTAATTACAATGTCGTTGTATTGTTTTTG
26952139 TTGTTTATTTGGACTCAT
196 TTGTTTATTTGGACTCAT
*
26952157 GAAGAAACTTAAACTATTCTATAATGGTTTTTGAACTTATGTGTTATTGTTATTAGTTTGGTTTG
1 GAAGAAACTTAAACTATTCTATAATGGTTTTTGAACTGATGTGTTATTGTTATTAGTTTGGTTTG
* *
26952222 GTTTGTTATTGTCGTTGGTTAATTGAACTTTTGTTGTGTT-TTTTTTTTGTTTGGAGTGGTGTAA
66 GTTTGTTATTGTCGTTGGATAATTGAACTTTTGTTGTGTTCTTTTTTTT-TTTGGACTGGTGTAA
* *
26952286 GTTTCTATTGTATTTTGGACTTTTT-CTTATGTTTTTTTTTATTATAATGTCGTTGT
130 GTTTCTATTGTATTTTGGA-TTTTTGCTTATGTTTTTTTTAATTACAATGTCGTTGT
26952342 TTACTTCGAC
Statistics
Matches: 173, Mismatches: 10, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
212 8 0.05
213 160 0.92
214 5 0.03
ACGTcount: A:0.18, C:0.05, G:0.21, T:0.56
Consensus pattern (213 bp):
GAAGAAACTTAAACTATTCTATAATGGTTTTTGAACTGATGTGTTATTGTTATTAGTTTGGTTTG
GTTTGTTATTGTCGTTGGATAATTGAACTTTTGTTGTGTTCTTTTTTTTTTTGGACTGGTGTAAG
TTTCTATTGTATTTTGGATTTTTGCTTATGTTTTTTTTAATTACAATGTCGTTGTATTGTTTTTG
TTGTTTATTTGGACTCAT
Found at i:26956029 original size:26 final size:26
Alignment explanation
Indices: 26955983--26956035 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
26955973 TCAAACATGC
*
26955983 ATTTAGGTCAATTTAACCCTAGGGGT
1 ATTTAGGTCAATTTAACCCTAAGGGT
* *
26956009 ATTTCGGT-AATTTATCTCCTAAGGGT
1 ATTTAGGTCAATTTAAC-CCTAAGGGT
26956035 A
1 A
26956036 AAACTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (26 bp):
ATTTAGGTCAATTTAACCCTAAGGGT
Found at i:26957552 original size:26 final size:26
Alignment explanation
Indices: 26957521--26957576 Score: 87
Period size: 26 Copynumber: 2.2 Consensus size: 26
26957511 TGAAATGCCC
26957521 ATCATGAAACATTTACCTAAACC-ATT
1 ATCATGAAACATTTACCT-AACCTATT
*
26957547 ATCATGGAACATTTACCTAACCTATT
1 ATCATGAAACATTTACCTAACCTATT
26957573 ATCA
1 ATCA
26957577 ATTTGTATCA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
25 4 0.14
26 24 0.86
ACGTcount: A:0.39, C:0.23, G:0.05, T:0.32
Consensus pattern (26 bp):
ATCATGAAACATTTACCTAACCTATT
Found at i:26958203 original size:18 final size:18
Alignment explanation
Indices: 26958180--26958233 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 18
26958170 AGAACCCTAA
26958180 TTTTCTTTTTTTTTCTTT
1 TTTTCTTTTTTTTTCTTT
* **
26958198 TTTTCTTTCTTTCCCTTT
1 TTTTCTTTTTTTTTCTTT
*
26958216 CTTTCTTTCTTTTCTTCT
1 TTTTCTTT-TTTT-TTCT
26958234 CTGTTTTCGT
Statistics
Matches: 27, Mismatches: 7, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
18 22 0.81
19 3 0.11
20 2 0.07
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (18 bp):
TTTTCTTTTTTTTTCTTT
Found at i:26958206 original size:4 final size:4
Alignment explanation
Indices: 26958181--26958227 Score: 53
Period size: 4 Copynumber: 11.8 Consensus size: 4
26958171 GAACCCTAAT
*
26958181 TTTC TTT- TTT- TTTC TTTT TTTC TTTC TTTCCC TTTC TTTC TTTC TTT
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTT--C TTTC TTTC TTTC TTT
26958228 TCTTCTCTGT
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
3 6 0.16
4 28 0.74
6 4 0.11
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (4 bp):
TTTC
Found at i:26958297 original size:8 final size:8
Alignment explanation
Indices: 26958286--26958333 Score: 68
Period size: 8 Copynumber: 6.5 Consensus size: 8
26958276 TGTTTATTTT
26958286 ATATAATA
1 ATATAATA
26958294 ATATAAT-
1 ATATAATA
26958301 AT-T--TA
1 ATATAATA
26958306 ATATAATA
1 ATATAATA
26958314 ATATAATA
1 ATATAATA
26958322 ATATAATA
1 ATATAATA
26958330 ATAT
1 ATAT
26958334 TAAATATCTT
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
4 1 0.03
5 2 0.06
6 2 0.06
7 2 0.06
8 29 0.81
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (8 bp):
ATATAATA
Found at i:26958309 original size:20 final size:20
Alignment explanation
Indices: 26958280--26958321 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
26958270 TTTATTTGTT
*
26958280 TATTTTATATAATAATATAA
1 TATTTAATATAATAATATAA
26958300 TATTTAATATAATAATATAA
1 TATTTAATATAATAATATAA
26958320 TA
1 TA
26958322 ATATAATAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (20 bp):
TATTTAATATAATAATATAA
Done.